Query 032085
Match_columns 147
No_of_seqs 204 out of 1076
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 09:24:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032085.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032085hhsearch_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 4.7E-25 1E-29 151.5 11.6 84 25-109 8-93 (94)
2 cd01389 MATA_HMG-box MATA_HMG- 99.9 4.5E-22 9.8E-27 131.6 8.2 73 39-112 1-73 (77)
3 cd01388 SOX-TCF_HMG-box SOX-TC 99.9 1.5E-21 3.3E-26 127.5 8.3 71 39-110 1-71 (72)
4 PF00505 HMG_box: HMG (high mo 99.8 7.9E-21 1.7E-25 122.2 9.3 69 40-109 1-69 (69)
5 cd01390 HMGB-UBF_HMG-box HMGB- 99.8 2.7E-20 5.9E-25 118.6 9.2 65 40-105 1-65 (66)
6 smart00398 HMG high mobility g 99.8 3.2E-20 6.8E-25 119.1 9.4 70 39-109 1-70 (70)
7 PF09011 HMG_box_2: HMG-box do 99.8 8.5E-20 1.8E-24 119.6 9.4 72 37-109 1-73 (73)
8 COG5648 NHP6B Chromatin-associ 99.8 6.2E-20 1.3E-24 140.5 7.9 89 28-117 59-147 (211)
9 cd00084 HMG-box High Mobility 99.8 2.2E-18 4.8E-23 109.3 9.2 65 40-105 1-65 (66)
10 KOG0381 HMG box-containing pro 99.8 6.6E-18 1.4E-22 115.5 10.8 76 36-112 17-95 (96)
11 KOG0527 HMG-box transcription 99.8 9.2E-19 2E-23 143.5 6.5 85 32-117 55-139 (331)
12 KOG0526 Nucleosome-binding fac 99.7 4E-17 8.6E-22 138.8 7.7 82 23-109 519-600 (615)
13 KOG3248 Transcription factor T 99.5 1.2E-13 2.5E-18 112.5 6.9 79 38-117 190-268 (421)
14 KOG4715 SWI/SNF-related matrix 99.3 1.1E-11 2.3E-16 100.4 9.1 79 33-112 58-136 (410)
15 KOG0528 HMG-box transcription 99.2 8.6E-12 1.9E-16 105.5 3.1 85 32-117 318-402 (511)
16 KOG2746 HMG-box transcription 98.8 8.8E-09 1.9E-13 90.3 4.8 76 28-104 170-247 (683)
17 PF14887 HMG_box_5: HMG (high 98.4 2.6E-06 5.7E-11 56.0 7.3 76 39-116 3-78 (85)
18 PF04690 YABBY: YABBY protein; 97.5 0.00031 6.6E-09 53.1 5.7 49 34-83 116-164 (170)
19 PF06382 DUF1074: Protein of u 97.4 0.0011 2.4E-08 50.2 8.1 49 44-97 83-131 (183)
20 COG5648 NHP6B Chromatin-associ 97.4 0.00013 2.8E-09 56.5 2.9 68 38-106 142-209 (211)
21 PF08073 CHDNT: CHDNT (NUC034) 96.6 0.0026 5.6E-08 39.4 3.2 40 44-84 13-52 (55)
22 PF04769 MAT_Alpha1: Mating-ty 95.1 0.054 1.2E-06 42.0 5.3 56 33-95 37-92 (201)
23 PF06244 DUF1014: Protein of u 94.8 0.045 9.7E-07 39.3 3.9 46 39-85 72-117 (122)
24 TIGR03481 HpnM hopanoid biosyn 90.8 0.8 1.7E-05 35.2 5.9 46 66-111 64-111 (198)
25 PRK15117 ABC transporter perip 90.4 0.93 2E-05 35.2 5.9 46 66-111 68-115 (211)
26 KOG3223 Uncharacterized conser 84.0 0.59 1.3E-05 36.1 1.4 52 38-93 162-214 (221)
27 PF05494 Tol_Tol_Ttg2: Toluene 82.9 1.7 3.6E-05 32.2 3.5 45 66-110 38-84 (170)
28 PF12881 NUT_N: NUT protein N 80.5 4.9 0.00011 33.3 5.6 68 44-112 229-297 (328)
29 COG2854 Ttg2D ABC-type transpo 69.9 5.8 0.00012 30.9 3.3 42 73-114 78-120 (202)
30 PF13875 DUF4202: Domain of un 66.5 12 0.00026 28.7 4.4 39 46-88 131-169 (185)
31 PF11304 DUF3106: Protein of u 60.3 43 0.00094 23.1 6.0 24 71-94 12-35 (107)
32 PRK10363 cpxP periplasmic repr 53.5 43 0.00093 25.3 5.3 41 68-109 110-150 (166)
33 PF15243 ANAPC15: Anaphase-pro 50.5 20 0.00042 24.5 2.8 32 78-115 16-47 (92)
34 PHA02608 67 prohead core prote 49.9 42 0.00091 22.2 4.2 28 80-107 11-38 (80)
35 PRK09706 transcriptional repre 49.3 53 0.0011 23.1 5.1 46 70-115 87-132 (135)
36 PRK12751 cpxP periplasmic stre 48.1 48 0.001 24.8 4.9 33 70-102 118-150 (162)
37 PRK12750 cpxP periplasmic repr 45.2 70 0.0015 24.0 5.4 34 72-105 127-160 (170)
38 PF06945 DUF1289: Protein of u 44.3 36 0.00078 20.3 3.0 25 67-96 23-47 (51)
39 PF01352 KRAB: KRAB box; Inte 43.6 20 0.00043 20.5 1.7 27 68-94 3-30 (41)
40 PF00887 ACBP: Acyl CoA bindin 43.1 80 0.0017 20.6 4.9 54 46-101 29-86 (87)
41 PF04931 DNA_pol_phi: DNA poly 39.6 17 0.00036 33.6 1.5 11 66-76 620-630 (784)
42 PRK10236 hypothetical protein; 37.4 35 0.00076 27.2 2.8 27 70-96 117-143 (237)
43 PF09164 VitD-bind_III: Vitami 36.1 1.2E+02 0.0026 19.5 5.0 33 45-78 9-41 (68)
44 KOG0416 Ubiquitin-protein liga 31.4 61 0.0013 24.7 3.1 23 95-117 129-151 (189)
45 PRK10455 periplasmic protein; 28.0 1.3E+02 0.0028 22.4 4.4 27 70-96 118-144 (161)
46 PF12650 DUF3784: Domain of un 27.2 47 0.001 22.1 1.8 15 78-92 25-39 (97)
47 KOG1610 Corticosteroid 11-beta 26.5 2E+02 0.0044 24.0 5.6 49 49-97 187-247 (322)
48 TIGR00787 dctP tripartite ATP- 25.8 1.6E+02 0.0036 22.8 4.9 28 76-103 213-240 (257)
49 KOG3838 Mannose lectin ERGIC-5 25.8 80 0.0017 27.4 3.2 36 82-117 269-304 (497)
50 PF07813 LTXXQ: LTXXQ motif fa 25.6 1.3E+02 0.0027 19.4 3.7 25 69-93 75-99 (100)
51 cd07081 ALDH_F20_ACDH_EutE-lik 25.5 1.9E+02 0.0041 24.9 5.6 43 70-112 6-48 (439)
52 PF06213 CobT: Cobalamin biosy 24.8 3.6E+02 0.0078 21.6 6.8 63 42-111 140-205 (282)
53 PF15076 DUF4543: Domain of un 24.6 56 0.0012 21.0 1.6 22 33-54 25-46 (75)
54 KOG2880 SMAD6 interacting prot 23.9 3.3E+02 0.0072 23.3 6.4 65 44-112 52-119 (424)
55 KOG1827 Chromatin remodeling c 23.5 4.5 9.8E-05 36.5 -4.8 44 43-87 552-595 (629)
56 cd07133 ALDH_CALDH_CalB Conife 21.9 2.6E+02 0.0057 23.8 5.7 43 69-111 4-46 (434)
57 COG1638 DctP TRAP-type C4-dica 21.9 2E+02 0.0043 23.9 4.8 38 75-112 243-280 (332)
58 smart00271 DnaJ DnaJ molecular 21.5 1.6E+02 0.0034 17.1 3.2 34 52-85 20-58 (60)
59 PHA03102 Small T antigen; Revi 21.4 1.5E+02 0.0032 22.0 3.6 37 51-87 25-61 (153)
60 PF15581 Imm35: Immunity prote 20.8 2.1E+02 0.0045 19.4 3.8 25 67-91 31-55 (93)
61 cd08317 Death_ank Death domain 20.5 50 0.0011 21.5 0.8 50 66-115 5-61 (84)
62 PF03480 SBP_bac_7: Bacterial 20.3 1.9E+02 0.0041 22.7 4.3 31 77-107 214-244 (286)
63 cd07132 ALDH_F3AB Aldehyde deh 20.2 2.8E+02 0.006 23.7 5.5 42 70-111 5-46 (443)
64 PF06628 Catalase-rel: Catalas 20.0 97 0.0021 19.4 2.1 19 74-92 12-30 (68)
No 1
>PTZ00199 high mobility group protein; Provisional
Probab=99.93 E-value=4.7e-25 Score=151.46 Aligned_cols=84 Identities=38% Similarity=0.662 Sum_probs=77.7
Q ss_pred CcCccCCccCCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHH
Q 032085 25 GKRTAKPKAAKDPNKPKRPPSAFFVFMEEFRKQFKEAHPNNKS--VATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYN 102 (147)
Q Consensus 25 ~k~k~kkk~~~dp~~PKrP~say~lF~~e~r~~~k~~~p~~~~--~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~ 102 (147)
+.++++++..+||+.||||+|||||||+++|..|..+||+ ++ +.+|+++||++|+.||+++|.+|.++|..++.+|.
T Consensus 8 ~~~k~~~k~~kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~-~~~~~~evsk~ige~Wk~ls~eeK~~y~~~A~~dk~rY~ 86 (94)
T PTZ00199 8 VLVRKNKRKKKDPNAPKRALSAYMFFAKEKRAEIIAENPE-LAKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDKVRYE 86 (94)
T ss_pred ccccccCCCCCCCCCCCCCCcHHHHHHHHHHHHHHHHCcC-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHH
Confidence 3445555678999999999999999999999999999999 64 89999999999999999999999999999999999
Q ss_pred HHHHHHH
Q 032085 103 KNMQDYN 109 (147)
Q Consensus 103 ~~~~~y~ 109 (147)
.+|..|.
T Consensus 87 ~e~~~Y~ 93 (94)
T PTZ00199 87 KEKAEYA 93 (94)
T ss_pred HHHHHHh
Confidence 9999995
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=99.87 E-value=4.5e-22 Score=131.56 Aligned_cols=73 Identities=27% Similarity=0.459 Sum_probs=70.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHHhhc
Q 032085 39 KPKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYNKQL 112 (147)
Q Consensus 39 ~PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~~k~ 112 (147)
+||||+||||||+++.|..|+..||+ +++.+|+++||.+|+.|++++|++|.++|..++++|..+++.|+..-
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 58999999999999999999999999 99999999999999999999999999999999999999999998753
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=99.86 E-value=1.5e-21 Score=127.54 Aligned_cols=71 Identities=34% Similarity=0.561 Sum_probs=68.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHHh
Q 032085 39 KPKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYNK 110 (147)
Q Consensus 39 ~PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~~ 110 (147)
++|||+|||||||+++|..|+..||+ +++.+|+++||.+|+.||+++|++|.++|..++++|..+++.|+.
T Consensus 1 ~iKrP~naf~~F~~~~r~~~~~~~p~-~~~~eisk~l~~~Wk~ls~~eK~~y~~~a~~~k~~y~~~~p~y~y 71 (72)
T cd01388 1 HIKRPMNAFMLFSKRHRRKVLQEYPL-KENRAISKILGDRWKALSNEEKQPYYEEAKKLKELHMKLYPDYKW 71 (72)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHCcCCCC
Confidence 47899999999999999999999999 999999999999999999999999999999999999999999964
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=99.85 E-value=7.9e-21 Score=122.25 Aligned_cols=69 Identities=45% Similarity=0.836 Sum_probs=65.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHH
Q 032085 40 PKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYN 109 (147)
Q Consensus 40 PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~ 109 (147)
|+||+|||+|||.+++..|+..||+ +++.+|+++||.+|+.||+++|.+|...|..++.+|..+++.|+
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 99999999999999999999999999999999999999999995
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=99.84 E-value=2.7e-20 Score=118.64 Aligned_cols=65 Identities=51% Similarity=0.854 Sum_probs=63.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHH
Q 032085 40 PKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNM 105 (147)
Q Consensus 40 PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~ 105 (147)
||||+|||+||++++|..++..||+ +++.+|++.||.+|+.||+++|.+|.+.|..++.+|..+|
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 9999999999999999999999999999999999999886
No 6
>smart00398 HMG high mobility group.
Probab=99.83 E-value=3.2e-20 Score=119.11 Aligned_cols=70 Identities=47% Similarity=0.831 Sum_probs=68.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHH
Q 032085 39 KPKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYN 109 (147)
Q Consensus 39 ~PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~ 109 (147)
+|++|+|||+||++++|..+..+||+ +++.+|+++||.+|+.||+++|.+|.++|..++.+|..+++.|.
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 59999999999999999999999999 99999999999999999999999999999999999999999884
No 7
>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=8.5e-20 Score=119.57 Aligned_cols=72 Identities=49% Similarity=0.876 Sum_probs=63.9
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHH
Q 032085 37 PNKPKRPPSAFFVFMEEFRKQFKEA-HPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYN 109 (147)
Q Consensus 37 p~~PKrP~say~lF~~e~r~~~k~~-~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~ 109 (147)
|++||+|+|||+||+.+++..++.. ++. .++.++++.|+..|++||+++|.+|.++|..++.+|..+|..|.
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 6799999999999999999999988 665 89999999999999999999999999999999999999999985
No 8
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=99.81 E-value=6.2e-20 Score=140.48 Aligned_cols=89 Identities=34% Similarity=0.702 Sum_probs=84.1
Q ss_pred ccCCccCCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHH
Q 032085 28 TAKPKAAKDPNKPKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQD 107 (147)
Q Consensus 28 k~kkk~~~dp~~PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~ 107 (147)
+..+++.+||+.||||+||||+|++++|..|...+|. +++.+|+++||++|++|++++|++|...|..++++|..++..
T Consensus 59 k~~~r~k~dpN~PKRp~sayf~y~~~~R~ei~~~~p~-l~~~e~~k~~~e~WK~Ltd~eke~y~k~~~~~~erYq~ek~~ 137 (211)
T COG5648 59 KRLVRKKKDPNGPKRPLSAYFLYSAENRDEIRKENPK-LTFGEVGKLLSEKWKELTDEEKEPYYKEANSDRERYQREKEE 137 (211)
T ss_pred HHHHHHhcCCCCCCCchhHHHHHHHHHHHHHHHhCCC-CChHHHHHHHHHHHHhccHhhhhhHHHHHhhHHHHHHHHHHh
Confidence 4456789999999999999999999999999999999 999999999999999999999999999999999999999999
Q ss_pred HHhhcccCcc
Q 032085 108 YNKQLADGVN 117 (147)
Q Consensus 108 y~~k~~~~~~ 117 (147)
|..+++....
T Consensus 138 y~~k~~~~~~ 147 (211)
T COG5648 138 YNKKLPNKAP 147 (211)
T ss_pred hhcccCCCCC
Confidence 9999987554
No 9
>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=99.78 E-value=2.2e-18 Score=109.26 Aligned_cols=65 Identities=49% Similarity=0.827 Sum_probs=63.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHH
Q 032085 40 PKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNM 105 (147)
Q Consensus 40 PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~ 105 (147)
|+||+|||+||+++.|..++..||+ +++.+|++.||.+|+.|++++|.+|.++|..++.+|..++
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 9999999999999999999999999999999999999875
No 10
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=99.77 E-value=6.6e-18 Score=115.46 Aligned_cols=76 Identities=47% Similarity=0.840 Sum_probs=72.4
Q ss_pred CC--CCCCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHH-HHHhhc
Q 032085 36 DP--NKPKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQ-DYNKQL 112 (147)
Q Consensus 36 dp--~~PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~-~y~~k~ 112 (147)
+| +.|+||++||++|+.+.|..++..||+ +++.+|+++||.+|++|++++|.+|...|..++.+|..+|. .|+..+
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 55 599999999999999999999999999 99999999999999999999999999999999999999999 888654
No 11
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=99.76 E-value=9.2e-19 Score=143.53 Aligned_cols=85 Identities=29% Similarity=0.539 Sum_probs=78.3
Q ss_pred ccCCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHHhh
Q 032085 32 KAAKDPNKPKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYNKQ 111 (147)
Q Consensus 32 k~~~dp~~PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~~k 111 (147)
..+....++||||||||+|.+..|.+|..+||+ +.+.||+|+||.+|+.|++++|.+|++.|++++..|++++++|+++
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 345566899999999999999999999999999 9999999999999999999999999999999999999999999987
Q ss_pred cccCcc
Q 032085 112 LADGVN 117 (147)
Q Consensus 112 ~~~~~~ 117 (147)
-..+..
T Consensus 134 PRRKkk 139 (331)
T KOG0527|consen 134 PRRKKK 139 (331)
T ss_pred cccccc
Confidence 654433
No 12
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=99.69 E-value=4e-17 Score=138.84 Aligned_cols=82 Identities=39% Similarity=0.678 Sum_probs=76.5
Q ss_pred cCCcCccCCccCCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHH
Q 032085 23 RAGKRTAKPKAAKDPNKPKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYN 102 (147)
Q Consensus 23 ~~~k~k~kkk~~~dp~~PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~ 102 (147)
+.++++++.++.+||++|||++||||||++..|..|+.. + +++++|++.+|.+|+.|+. |.+|.+.|+.++++|+
T Consensus 519 k~~~~~k~~kk~kdpnapkra~sa~m~w~~~~r~~ik~d--g-i~~~dv~kk~g~~wk~ms~--k~~we~ka~~dk~ry~ 593 (615)
T KOG0526|consen 519 KEKEKKKKGKKKKDPNAPKRATSAYMLWLNASRESIKED--G-ISVGDVAKKAGEKWKQMSA--KEEWEDKAAVDKQRYE 593 (615)
T ss_pred hhhccccCcccCCCCCCCccchhHHHHHHHhhhhhHhhc--C-chHHHHHHHHhHHHhhhcc--cchhhHHHHHHHHHHH
Confidence 345555778899999999999999999999999999987 5 8999999999999999999 9999999999999999
Q ss_pred HHHHHHH
Q 032085 103 KNMQDYN 109 (147)
Q Consensus 103 ~~~~~y~ 109 (147)
.+|.+|+
T Consensus 594 ~em~~yk 600 (615)
T KOG0526|consen 594 DEMKEYK 600 (615)
T ss_pred HHHHhhc
Confidence 9999999
No 13
>KOG3248 consensus Transcription factor TCF-4 [Transcription]
Probab=99.46 E-value=1.2e-13 Score=112.46 Aligned_cols=79 Identities=23% Similarity=0.406 Sum_probs=73.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHHhhcccCcc
Q 032085 38 NKPKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYNKQLADGVN 117 (147)
Q Consensus 38 ~~PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~~k~~~~~~ 117 (147)
.+.|+|+||||||+++.|..|..++-- ....+|.++||++|..||-+|..+|.++|.++++.|.+.++.|.+....+..
T Consensus 190 phiKKPLNAFmlyMKEmRa~vvaEctl-KeSAaiNqiLGrRWH~LSrEEQAKYyElArKerqlH~qlYP~WSARdNYgKK 268 (421)
T KOG3248|consen 190 PHIKKPLNAFMLYMKEMRAKVVAECTL-KESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNYGKK 268 (421)
T ss_pred ccccccHHHHHHHHHHHHHHHHHHhhh-hhHHHHHHHHhHHHhhhhHHHHHHHHHHHHHHHHHHHHhcCCcchhhhhhhh
Confidence 488999999999999999999999875 6788999999999999999999999999999999999999999988777644
No 14
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=99.31 E-value=1.1e-11 Score=100.41 Aligned_cols=79 Identities=24% Similarity=0.554 Sum_probs=73.7
Q ss_pred cCCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHHhhc
Q 032085 33 AAKDPNKPKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYNKQL 112 (147)
Q Consensus 33 ~~~dp~~PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~~k~ 112 (147)
..+.|.+|-+|+-+||.|++..+++|+..||+ +.+.+|.++||.||..|++++|+.|...++.++..|.+.|..|....
T Consensus 58 ~pkpPkppekpl~pymrySrkvWd~VkA~nPe-~kLWeiGK~Ig~mW~dLpd~EK~ey~~EYeaEKieY~~smkayh~sp 136 (410)
T KOG4715|consen 58 RPKPPKPPEKPLMPYMRYSRKVWDQVKASNPE-LKLWEIGKIIGGMWLDLPDEEKQEYLNEYEAEKIEYNESMKAYHNSP 136 (410)
T ss_pred CCCCCCCCCcccchhhHHhhhhhhhhhccCcc-hHHHHHHHHHHHHHhhCcchHHHHHHHHHHHHHHHHHHHHHHhhCCc
Confidence 34567788999999999999999999999999 99999999999999999999999999999999999999999987643
No 15
>KOG0528 consensus HMG-box transcription factor SOX5 [Transcription]
Probab=99.19 E-value=8.6e-12 Score=105.47 Aligned_cols=85 Identities=26% Similarity=0.432 Sum_probs=77.1
Q ss_pred ccCCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHHhh
Q 032085 32 KAAKDPNKPKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYNKQ 111 (147)
Q Consensus 32 k~~~dp~~PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~~k 111 (147)
-....+.+.||||||||+|.++.|..|...+|+ +-+..|+++||.+|+.|+..+|++|.+.-.++-..|...++.|+++
T Consensus 318 g~~ss~PHIKRPMNAFMVWAkDERRKILqA~PD-MHNSnISKILGSRWKaMSN~eKQPYYEEQaRLSk~HlEk~PdYrYk 396 (511)
T KOG0528|consen 318 GRASSEPHIKRPMNAFMVWAKDERRKILQAFPD-MHNSNISKILGSRWKAMSNTEKQPYYEEQARLSKLHLEKYPDYRYK 396 (511)
T ss_pred CcCCCCccccCCcchhhcccchhhhhhhhcCcc-ccccchhHHhcccccccccccccchHHHHHHHHHhhhccCcccccC
Confidence 344556789999999999999999999999999 8889999999999999999999999999999999999999999998
Q ss_pred cccCcc
Q 032085 112 LADGVN 117 (147)
Q Consensus 112 ~~~~~~ 117 (147)
-.++..
T Consensus 397 PRPKRT 402 (511)
T KOG0528|consen 397 PRPKRT 402 (511)
T ss_pred CCCCce
Confidence 776544
No 16
>KOG2746 consensus HMG-box transcription factor Capicua and related proteins [Transcription]
Probab=98.75 E-value=8.8e-09 Score=90.28 Aligned_cols=76 Identities=26% Similarity=0.468 Sum_probs=69.7
Q ss_pred ccCCccCCCCCCCCCCCCHHHHHHHHHH--HHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHH
Q 032085 28 TAKPKAAKDPNKPKRPPSAFFVFMEEFR--KQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKN 104 (147)
Q Consensus 28 k~kkk~~~dp~~PKrP~say~lF~~e~r--~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~ 104 (147)
..+-.-+++..+.+||||||+||++-+| ..+...||+ ..+..|++|||+.|-.|-+.||+.|+++|.+.++.|.+.
T Consensus 170 dgrspnkr~k~HirrPMnaf~ifskrhr~~g~vhq~~pn-~DNrtIskiLgewWytL~~~Ekq~yhdLa~Qvk~Ahfka 247 (683)
T KOG2746|consen 170 DGRSPNKRDKDHIRRPMNAFHIFSKRHRGEGRVHQRHPN-QDNRTISKILGEWWYTLGPNEKQKYHDLAFQVKEAHFKA 247 (683)
T ss_pred ccCCCCcCcchhhhhhhHHHHHHHhhcCCccchhccCcc-ccchhHHHHHhhhHhhhCchhhhhHHHHHHHHHHHHhhh
Confidence 3344557778899999999999999999 899999998 999999999999999999999999999999999999886
No 17
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A.
Probab=98.37 E-value=2.6e-06 Score=56.03 Aligned_cols=76 Identities=18% Similarity=0.373 Sum_probs=62.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHHhhcccCc
Q 032085 39 KPKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYNKQLADGV 116 (147)
Q Consensus 39 ~PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~~k~~~~~ 116 (147)
.|-.|.+|--||.+.....+...++. ....+ .+.+...|++|++.+|-+|+..|.++..+|+.+|.+|+..++...
T Consensus 3 lPE~PKt~qe~Wqq~vi~dYla~~~~-dr~K~-~kam~~~W~~me~Kekl~WIkKA~EdqKrYE~el~e~r~~~~~~~ 78 (85)
T PF14887_consen 3 LPETPKTAQEIWQQSVIGDYLAKFRN-DRKKA-LKAMEAQWSQMEKKEKLKWIKKAAEDQKRYERELREMRSAPADAN 78 (85)
T ss_dssp -S----THHHHHHHHHHHHHHHHTTS-THHHH-HHHHHHHHHTTGGGHHHHHHHHHHHHHHHHHHHHHCCS-CCCTTT
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHhhH-hHHHH-HHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCCCCC
Confidence 57789999999999999999999987 44444 568999999999999999999999999999999999998876543
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=97.47 E-value=0.00031 Score=53.05 Aligned_cols=49 Identities=33% Similarity=0.498 Sum_probs=43.7
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCC
Q 032085 34 AKDPNKPKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMS 83 (147)
Q Consensus 34 ~~dp~~PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls 83 (147)
.+.|.+-.|-+|||..|+++.-..|+..||+ ++..|+....+..|...+
T Consensus 116 ~kPPEKRqR~psaYn~f~k~ei~rik~~~p~-ishkeaFs~aAknW~h~p 164 (170)
T PF04690_consen 116 NKPPEKRQRVPSAYNRFMKEEIQRIKAENPD-ISHKEAFSAAAKNWAHFP 164 (170)
T ss_pred cCCccccCCCchhHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHhhhhCc
Confidence 4445666788999999999999999999999 999999999999998765
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=97.41 E-value=0.0011 Score=50.15 Aligned_cols=49 Identities=29% Similarity=0.440 Sum_probs=42.7
Q ss_pred CCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHH
Q 032085 44 PSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKR 97 (147)
Q Consensus 44 ~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~ 97 (147)
-+|||-|+.++|. .|.+ +...++....+.+|..|++.+|..|..++...
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 5789999999876 5566 89999999999999999999999999876544
No 20
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=97.39 E-value=0.00013 Score=56.53 Aligned_cols=68 Identities=19% Similarity=0.393 Sum_probs=62.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHH
Q 032085 38 NKPKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQ 106 (147)
Q Consensus 38 ~~PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~ 106 (147)
.+++.|..+|+-|-..+|+.+...+|+ ....++++++|..|.+|++.-+.+|.+.+..++..|...|+
T Consensus 142 ~~~~~~~~~~~e~~~~~r~~~~~~~~~-~~~~e~~k~~~~~w~el~~skK~~~~~~~Kk~k~~~~~~~~ 209 (211)
T COG5648 142 LPNKAPIGPFIENEPKIRPKVEGPSPD-KALVEETKIISKAWSELDESKKKKYIDKYKKLKEEYDSFYP 209 (211)
T ss_pred cCCCCCCchhhhccHHhccccCCCCcc-hhhhHHhhhhhhhhhhhChhhhhHHHHHHHHHHHHHhhhcc
Confidence 578889999999999999999999998 89999999999999999999999999999999999887664
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=96.63 E-value=0.0026 Score=39.38 Aligned_cols=40 Identities=18% Similarity=0.400 Sum_probs=36.0
Q ss_pred CCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCCh
Q 032085 44 PSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSE 84 (147)
Q Consensus 44 ~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~ 84 (147)
++.|-+|.+..|+.|...||+ +....|..+|+..|+..+.
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 467889999999999999999 9999999999999987543
No 22
>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=95.09 E-value=0.054 Score=42.02 Aligned_cols=56 Identities=20% Similarity=0.340 Sum_probs=40.3
Q ss_pred cCCCCCCCCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHH
Q 032085 33 AAKDPNKPKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAE 95 (147)
Q Consensus 33 ~~~dp~~PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~ 95 (147)
.......++||+|+||+|..-.- ...|+ ....+++..|+.+|..=+- |..|.-.|.
T Consensus 37 ~~~~~~~~kr~lN~Fm~FRsyy~----~~~~~-~~Qk~~S~~l~~lW~~dp~--k~~W~l~ak 92 (201)
T PF04769_consen 37 RKRSPEKAKRPLNGFMAFRSYYS----PIFPP-LPQKELSGILTKLWEKDPF--KNKWSLMAK 92 (201)
T ss_pred ccccccccccchhHHHHHHHHHH----hhcCC-cCHHHHHHHHHHHHhCCcc--HhHHHHHhh
Confidence 34455678999999999976554 44566 7789999999999986333 455554443
No 23
>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=94.81 E-value=0.045 Score=39.27 Aligned_cols=46 Identities=20% Similarity=0.352 Sum_probs=40.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChH
Q 032085 39 KPKRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSED 85 (147)
Q Consensus 39 ~PKrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~ 85 (147)
|-+|-.-||.-|...+.+.|+.+||+ +..+.+-.+|-.+|..-|++
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 33555578999999999999999999 99999999999999887764
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=90.81 E-value=0.8 Score=35.24 Aligned_cols=46 Identities=15% Similarity=0.468 Sum_probs=40.3
Q ss_pred CCHHHHHH-HHHHHhcCCChHhhHHHHHHHHH-HHHHHHHHHHHHHhh
Q 032085 66 KSVATVGK-AAGEKWKSMSEDEKAPFVERAEK-RKSDYNKNMQDYNKQ 111 (147)
Q Consensus 66 ~~~~ei~k-~l~~~Wk~ls~~eK~~Y~~~A~~-~k~~y~~~~~~y~~k 111 (147)
..+..|++ .||..|+.+|+++|+.|...... ....|-..+..|...
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 57788877 68999999999999999999888 778899999988754
No 25
>PRK15117 ABC transporter periplasmic binding protein MlaC; Provisional
Probab=90.38 E-value=0.93 Score=35.22 Aligned_cols=46 Identities=17% Similarity=0.339 Sum_probs=39.3
Q ss_pred CCHHHHHH-HHHHHhcCCChHhhHHHHHHHHH-HHHHHHHHHHHHHhh
Q 032085 66 KSVATVGK-AAGEKWKSMSEDEKAPFVERAEK-RKSDYNKNMQDYNKQ 111 (147)
Q Consensus 66 ~~~~ei~k-~l~~~Wk~ls~~eK~~Y~~~A~~-~k~~y~~~~~~y~~k 111 (147)
..+..+++ .||..|+.+|+++|..|...... ...-|-..+..|.-+
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 57777766 68999999999999999998887 567899999999754
No 26
>KOG3223 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.03 E-value=0.59 Score=36.10 Aligned_cols=52 Identities=23% Similarity=0.463 Sum_probs=43.6
Q ss_pred CCC-CCCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHH
Q 032085 38 NKP-KRPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVER 93 (147)
Q Consensus 38 ~~P-KrP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~ 93 (147)
.+| +|=.-||.-|-....+.|+.+||+ +.+.++-.+|-.+|..-|++ ||.+.
T Consensus 162 rHPEkRmrAA~~afEe~~LPrLK~e~P~-lrlsQ~Kqll~Kew~KsPDN---P~Nq~ 214 (221)
T KOG3223|consen 162 RHPEKRMRAAFKAFEEARLPRLKKENPG-LRLSQYKQLLKKEWQKSPDN---PFNQA 214 (221)
T ss_pred cChHHHHHHHHHHHHHhhchhhhhcCCC-ccHHHHHHHHHHHHhhCCCC---hhhHH
Confidence 345 555678999999999999999999 99999999999999988875 55543
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=82.87 E-value=1.7 Score=32.22 Aligned_cols=45 Identities=20% Similarity=0.456 Sum_probs=35.2
Q ss_pred CCHHHHHH-HHHHHhcCCChHhhHHHHHHHHH-HHHHHHHHHHHHHh
Q 032085 66 KSVATVGK-AAGEKWKSMSEDEKAPFVERAEK-RKSDYNKNMQDYNK 110 (147)
Q Consensus 66 ~~~~ei~k-~l~~~Wk~ls~~eK~~Y~~~A~~-~k~~y~~~~~~y~~ 110 (147)
..+..|++ .||..|+.||+++++.|...... ....|-..+..|..
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 67777776 47889999999999999998877 66778888888875
No 28
>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=80.52 E-value=4.9 Score=33.28 Aligned_cols=68 Identities=22% Similarity=0.201 Sum_probs=47.4
Q ss_pred CCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHH-HHHHHHHhhc
Q 032085 44 PSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYN-KNMQDYNKQL 112 (147)
Q Consensus 44 ~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~-~~~~~y~~k~ 112 (147)
..||-+|+.-.-..|....|. ++.-|-....-+.|...|.-+|..|.++|++-++-=. ++|+.-+-++
T Consensus 229 ~EAlSCFLIpvLrsLar~kPt-MtlEeGl~ra~qEW~~~SnfdRmifyemaekFmEFEaeEEmq~q~lq~ 297 (328)
T PF12881_consen 229 AEALSCFLIPVLRSLARLKPT-MTLEEGLWRAVQEWQHTSNFDRMIFYEMAEKFMEFEAEEEMQIQKLQL 297 (328)
T ss_pred hhhhhhhHHHHHHHHHhcCCC-ccHHHHHHHHHHHhhccccccHHHHHHHHHHHccCCcHHHHHHHHHHH
Confidence 445555555555556666676 7888888889999999999999999999988553222 3444444333
No 29
>COG2854 Ttg2D ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=69.94 E-value=5.8 Score=30.87 Aligned_cols=42 Identities=19% Similarity=0.383 Sum_probs=36.1
Q ss_pred HHHHHHhcCCChHhhHHHHHHHHH-HHHHHHHHHHHHHhhccc
Q 032085 73 KAAGEKWKSMSEDEKAPFVERAEK-RKSDYNKNMQDYNKQLAD 114 (147)
Q Consensus 73 k~l~~~Wk~ls~~eK~~Y~~~A~~-~k~~y~~~~~~y~~k~~~ 114 (147)
..||.-|+.+|+++++.|...... ....|-..+..|+-+...
T Consensus 78 ~vLGk~~k~aspeQ~~~F~~aF~~yl~q~Y~~aL~~Y~~q~~~ 120 (202)
T COG2854 78 LVLGKYYKTASPEQRQAFFKAFRTYLEQTYGQALLDYKGQTLK 120 (202)
T ss_pred HHhccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHccCCCce
Confidence 458999999999999999998887 667899999999987643
No 30
>PF13875 DUF4202: Domain of unknown function (DUF4202)
Probab=66.49 E-value=12 Score=28.73 Aligned_cols=39 Identities=26% Similarity=0.485 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhH
Q 032085 46 AFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKA 88 (147)
Q Consensus 46 ay~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~ 88 (147)
+-++|+..+...+...|. -..+..+|...|+.||+.-++
T Consensus 131 acLVFL~~~f~~F~~~~d----eeK~v~Il~KTw~KMS~~g~~ 169 (185)
T PF13875_consen 131 ACLVFLEYYFEDFAAKHD----EEKIVDILRKTWRKMSERGHE 169 (185)
T ss_pred HHHHhHHHHHHHHHhcCC----HHHHHHHHHHHHHHCCHHHHH
Confidence 468899999999998874 367888899999999998774
No 31
>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=60.29 E-value=43 Score=23.12 Aligned_cols=24 Identities=17% Similarity=0.475 Sum_probs=11.7
Q ss_pred HHHHHHHHhcCCChHhhHHHHHHH
Q 032085 71 VGKAAGEKWKSMSEDEKAPFVERA 94 (147)
Q Consensus 71 i~k~l~~~Wk~ls~~eK~~Y~~~A 94 (147)
+..-+...|+.|++..+..+...|
T Consensus 12 ~L~pl~~~W~~l~~~qr~k~l~~a 35 (107)
T PF11304_consen 12 ALAPLAERWNSLPPEQRRKWLQIA 35 (107)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHH
Confidence 334444555555555555444444
No 32
>PRK10363 cpxP periplasmic repressor CpxP; Reviewed
Probab=53.47 E-value=43 Score=25.29 Aligned_cols=41 Identities=10% Similarity=0.327 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHH
Q 032085 68 VATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYN 109 (147)
Q Consensus 68 ~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~ 109 (147)
..++.++-.++++-|++++|..|....+.-...+.. +..+.
T Consensus 110 ~Vem~k~~nqmy~lLTPEQKaq~~~~~~~rm~~~~~-~~~~q 150 (166)
T PRK10363 110 QVEMAKVRNQMYRLLTPEQQAVLNEKHQQRMEQLRD-VTQWQ 150 (166)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHH-HHhcC
Confidence 345677778999999999999999988887777754 54443
No 33
>PF15243 ANAPC15: Anaphase-promoting complex subunit 15
Probab=50.51 E-value=20 Score=24.47 Aligned_cols=32 Identities=19% Similarity=0.428 Sum_probs=18.3
Q ss_pred HhcCCChHhhHHHHHHHHHHHHHHHHHHHHHHhhcccC
Q 032085 78 KWKSMSEDEKAPFVERAEKRKSDYNKNMQDYNKQLADG 115 (147)
Q Consensus 78 ~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~~k~~~~ 115 (147)
.|=+|. +++.+.++. .++..+++.|....+..
T Consensus 16 lwf~~d----~pc~dE~EL--~~~Eq~~q~Wl~sI~ek 47 (92)
T PF15243_consen 16 LWFNLD----RPCVDETEL--QQQEQQHQAWLQSIAEK 47 (92)
T ss_pred ccccCC----CccchHHHH--HHHHHHHHHHHHHHHHh
Confidence 577765 455554443 36666677776655443
No 34
>PHA02608 67 prohead core protein; Provisional
Probab=49.94 E-value=42 Score=22.17 Aligned_cols=28 Identities=7% Similarity=0.006 Sum_probs=17.2
Q ss_pred cCCChHhhHHHHHHHHHHHHHHHHHHHH
Q 032085 80 KSMSEDEKAPFVERAEKRKSDYNKNMQD 107 (147)
Q Consensus 80 k~ls~~eK~~Y~~~A~~~k~~y~~~~~~ 107 (147)
+.|-...|..|..++.+--..++....+
T Consensus 11 ~DLV~akK~F~~~Me~rt~~li~e~k~e 38 (80)
T PHA02608 11 GDLVEAKKEFASIMEARTEALIEEEKVE 38 (80)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566677777777777655555444333
No 35
>PRK09706 transcriptional repressor DicA; Reviewed
Probab=49.32 E-value=53 Score=23.15 Aligned_cols=46 Identities=17% Similarity=0.218 Sum_probs=39.3
Q ss_pred HHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHHhhcccC
Q 032085 70 TVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYNKQLADG 115 (147)
Q Consensus 70 ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~~k~~~~ 115 (147)
.-.+.|-..|+.|+++++.............|...+++|-......
T Consensus 87 ~~~~~ll~~~~~L~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~ 132 (135)
T PRK09706 87 EDQKELLELFDALPESEQDAQLSEMRARVENFNKLFEELLKARKRS 132 (135)
T ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 3346788899999999999999999999999999999998766543
No 36
>PRK12751 cpxP periplasmic stress adaptor protein CpxP; Reviewed
Probab=48.11 E-value=48 Score=24.78 Aligned_cols=33 Identities=9% Similarity=0.302 Sum_probs=24.9
Q ss_pred HHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHH
Q 032085 70 TVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYN 102 (147)
Q Consensus 70 ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~ 102 (147)
+..+...++++.|++++|..|.+..++-..+..
T Consensus 118 ~~~~~~~qmy~lLTPEQra~l~~~~e~r~~~~~ 150 (162)
T PRK12751 118 EMAKVRNQMYNLLTPEQKEALNKKHQERIEKLQ 150 (162)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHH
Confidence 334556778899999999999997776655553
No 37
>PRK12750 cpxP periplasmic repressor CpxP; Reviewed
Probab=45.16 E-value=70 Score=23.98 Aligned_cols=34 Identities=18% Similarity=0.267 Sum_probs=27.6
Q ss_pred HHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHH
Q 032085 72 GKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNM 105 (147)
Q Consensus 72 ~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~ 105 (147)
.+..-+++..|++++|..|.++..+-...|...+
T Consensus 127 ~~~~~~~~~vLTpEQRak~~e~~~~r~~~~~~~~ 160 (170)
T PRK12750 127 LEKRHQMLSILTPEQKAKFQELQQERMQECQDKM 160 (170)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445568999999999999998888877777766
No 38
>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=44.28 E-value=36 Score=20.30 Aligned_cols=25 Identities=32% Similarity=0.684 Sum_probs=18.3
Q ss_pred CHHHHHHHHHHHhcCCChHhhHHHHHHHHH
Q 032085 67 SVATVGKAAGEKWKSMSEDEKAPFVERAEK 96 (147)
Q Consensus 67 ~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~ 96 (147)
+..||. .|..|++.+|.........
T Consensus 23 T~dEI~-----~W~~~s~~er~~i~~~l~~ 47 (51)
T PF06945_consen 23 TLDEIR-----DWKSMSDDERRAILARLRA 47 (51)
T ss_pred cHHHHH-----HHhhCCHHHHHHHHHHHHH
Confidence 566775 4999999998776654443
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=43.63 E-value=20 Score=20.53 Aligned_cols=27 Identities=15% Similarity=0.300 Sum_probs=15.0
Q ss_pred HHHHHHHHH-HHhcCCChHhhHHHHHHH
Q 032085 68 VATVGKAAG-EKWKSMSEDEKAPFVERA 94 (147)
Q Consensus 68 ~~ei~k~l~-~~Wk~ls~~eK~~Y~~~A 94 (147)
|.+|+--++ +.|..|.+.+|..|.+.-
T Consensus 3 f~Dvav~fs~eEW~~L~~~Qk~ly~dvm 30 (41)
T PF01352_consen 3 FEDVAVYFSQEEWELLDPAQKNLYRDVM 30 (41)
T ss_dssp ----TT---HHHHHTS-HHHHHHHHHHH
T ss_pred EEEEEEEcChhhcccccceecccchhHH
Confidence 344444444 559999999999888654
No 40
>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=43.14 E-value=80 Score=20.58 Aligned_cols=54 Identities=15% Similarity=0.348 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCC----hHhhHHHHHHHHHHHHHH
Q 032085 46 AFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMS----EDEKAPFVERAEKRKSDY 101 (147)
Q Consensus 46 ay~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls----~~eK~~Y~~~A~~~k~~y 101 (147)
-|-||.+.....+....|+...+....+- ..|+.|. ++-+..|.++.......|
T Consensus 29 LYalyKQAt~Gd~~~~~P~~~d~~~~~K~--~AW~~l~gms~~eA~~~Yi~~v~~~~~~~ 86 (87)
T PF00887_consen 29 LYALYKQATHGDCDTPRPGFFDIEGRAKW--DAWKALKGMSKEEAMREYIELVEELIPKY 86 (87)
T ss_dssp HHHHHHHHHTSS--S-CTTTTCHHHHHHH--HHHHTTTTTHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhCCCcCCCCcchhHHHHHHH--HHHHHccCCCHHHHHHHHHHHHHHHHHhc
Confidence 37777777766665566664445444443 5598776 444566766666665544
No 41
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=39.56 E-value=17 Score=33.64 Aligned_cols=11 Identities=0% Similarity=-0.182 Sum_probs=4.1
Q ss_pred CCHHHHHHHHH
Q 032085 66 KSVATVGKAAG 76 (147)
Q Consensus 66 ~~~~ei~k~l~ 76 (147)
++...+.-++.
T Consensus 620 ~t~~~l~~ll~ 630 (784)
T PF04931_consen 620 LTESGLQLLLD 630 (784)
T ss_pred cCHHHHHHHHH
Confidence 33333333333
No 42
>PRK10236 hypothetical protein; Provisional
Probab=37.40 E-value=35 Score=27.21 Aligned_cols=27 Identities=22% Similarity=0.497 Sum_probs=21.7
Q ss_pred HHHHHHHHHhcCCChHhhHHHHHHHHH
Q 032085 70 TVGKAAGEKWKSMSEDEKAPFVERAEK 96 (147)
Q Consensus 70 ei~k~l~~~Wk~ls~~eK~~Y~~~A~~ 96 (147)
-+.+++...|..||+++++.+...-..
T Consensus 117 il~kll~~a~~kms~eE~~~L~~~l~~ 143 (237)
T PRK10236 117 LLEQFLRNTWKKMDEEHKQEFLHAVDA 143 (237)
T ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHhh
Confidence 457889999999999999888764433
No 43
>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=36.11 E-value=1.2e+02 Score=19.46 Aligned_cols=33 Identities=6% Similarity=0.301 Sum_probs=24.8
Q ss_pred CHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 032085 45 SAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEK 78 (147)
Q Consensus 45 say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~ 78 (147)
+.|.=|-+.....++...|+ .+..+|..++.++
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 45788888889999999999 8988888777654
No 44
>KOG0416 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.36 E-value=61 Score=24.72 Aligned_cols=23 Identities=17% Similarity=0.388 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHhhcccCcc
Q 032085 95 EKRKSDYNKNMQDYNKQLADGVN 117 (147)
Q Consensus 95 ~~~k~~y~~~~~~y~~k~~~~~~ 117 (147)
...++.|.+...+|-.+.+...+
T Consensus 129 l~~~~~Y~~~v~eY~~kYA~~~~ 151 (189)
T KOG0416|consen 129 LRDPEEYEEKVKEYIKKYATPEA 151 (189)
T ss_pred hcCHHHHHHHHHHHHHHhcChhh
Confidence 34678899999999998886665
No 45
>PRK10455 periplasmic protein; Reviewed
Probab=27.96 E-value=1.3e+02 Score=22.37 Aligned_cols=27 Identities=15% Similarity=0.255 Sum_probs=20.2
Q ss_pred HHHHHHHHHhcCCChHhhHHHHHHHHH
Q 032085 70 TVGKAAGEKWKSMSEDEKAPFVERAEK 96 (147)
Q Consensus 70 ei~k~l~~~Wk~ls~~eK~~Y~~~A~~ 96 (147)
...+....+|..|++++|..|.+..++
T Consensus 118 ~~~~~~~qiy~vLTPEQr~q~~~~~ek 144 (161)
T PRK10455 118 AHMETQNKIYNVLTPEQKKQFNANFEK 144 (161)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 345556678999999999999875543
No 46
>PF12650 DUF3784: Domain of unknown function (DUF3784); InterPro: IPR017259 This group represents an uncharacterised conserved protein.
Probab=27.20 E-value=47 Score=22.12 Aligned_cols=15 Identities=27% Similarity=0.563 Sum_probs=13.3
Q ss_pred HhcCCChHhhHHHHH
Q 032085 78 KWKSMSEDEKAPFVE 92 (147)
Q Consensus 78 ~Wk~ls~~eK~~Y~~ 92 (147)
-|+.||++||+.|..
T Consensus 25 Gyntms~eEk~~~D~ 39 (97)
T PF12650_consen 25 GYNTMSKEEKEKYDK 39 (97)
T ss_pred hcccCCHHHHHHhhH
Confidence 389999999999975
No 47
>KOG1610 consensus Corticosteroid 11-beta-dehydrogenase and related short chain-type dehydrogenases [Secondary metabolites biosynthesis, transport and catabolism; General function prediction only]
Probab=26.51 E-value=2e+02 Score=24.02 Aligned_cols=49 Identities=16% Similarity=0.357 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHhC-------CC-----CCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHH
Q 032085 49 VFMEEFRKQFKEAH-------PN-----NKSVATVGKAAGEKWKSMSEDEKAPFVERAEKR 97 (147)
Q Consensus 49 lF~~e~r~~~k~~~-------p~-----~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~ 97 (147)
.|+...|.++..-. |+ ..+...+.+.+..+|..|+++.|+.|-+.+...
T Consensus 187 af~D~lR~EL~~fGV~VsiiePG~f~T~l~~~~~~~~~~~~~w~~l~~e~k~~YGedy~~~ 247 (322)
T KOG1610|consen 187 AFSDSLRRELRPFGVKVSIIEPGFFKTNLANPEKLEKRMKEIWERLPQETKDEYGEDYFED 247 (322)
T ss_pred HHHHHHHHHHHhcCcEEEEeccCccccccCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence 36666676664211 32 124578889999999999999999998766554
No 48
>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=25.84 E-value=1.6e+02 Score=22.78 Aligned_cols=28 Identities=29% Similarity=0.306 Sum_probs=21.4
Q ss_pred HHHhcCCChHhhHHHHHHHHHHHHHHHH
Q 032085 76 GEKWKSMSEDEKAPFVERAEKRKSDYNK 103 (147)
Q Consensus 76 ~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~ 103 (147)
...|..||++.|....+.+...-..+..
T Consensus 213 ~~~~~~L~~e~q~~i~~a~~~~~~~~~~ 240 (257)
T TIGR00787 213 KAFWKSLPPDLQAVVKEAAKEAGEYQRK 240 (257)
T ss_pred HHHHhcCCHHHHHHHHHHHHHHHHHHHH
Confidence 4679999999999998877776444433
No 49
>KOG3838 consensus Mannose lectin ERGIC-53, involved in glycoprotein traffic [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.79 E-value=80 Score=27.36 Aligned_cols=36 Identities=28% Similarity=0.353 Sum_probs=27.3
Q ss_pred CChHhhHHHHHHHHHHHHHHHHHHHHHHhhcccCcc
Q 032085 82 MSEDEKAPFVERAEKRKSDYNKNMQDYNKQLADGVN 117 (147)
Q Consensus 82 ls~~eK~~Y~~~A~~~k~~y~~~~~~y~~k~~~~~~ 117 (147)
+.+.+|++|++..+..+..|.+...+|++.+++.-.
T Consensus 269 ~qe~ek~kyqeEfe~~q~elek~k~efkk~hpd~~~ 304 (497)
T KOG3838|consen 269 MQELEKAKYQEEFEWAQLELEKRKDEFKKSHPDAQG 304 (497)
T ss_pred hhHHHHHHHHHHHHHHHHHHhhhHhhhccCCchhhc
Confidence 345578888888888888888888888888775443
No 50
>PF07813 LTXXQ: LTXXQ motif family protein; InterPro: IPR012899 This five residue motif is found in a number of bacterial proteins bearing similarity to the protein CpxP (P32158 from SWISSPROT). This is a periplasmic protein that aids in combating extracytoplasmic protein-mediated toxicity, and may also be involved in the response to alkaline pH []. Another member of this family, Spy (P77754 from SWISSPROT) is also a periplasmic protein that may be involved in the response to stress []. The homology between CpxP and Spy may indicate that these two proteins are functionally related []. The motif is found repeated twice in many members of this entry. ; GO: 0042597 periplasmic space; PDB: 3ITF_B 3QZC_B 3OEO_D 3O39_A.
Probab=25.63 E-value=1.3e+02 Score=19.40 Aligned_cols=25 Identities=16% Similarity=0.234 Sum_probs=19.2
Q ss_pred HHHHHHHHHHhcCCChHhhHHHHHH
Q 032085 69 ATVGKAAGEKWKSMSEDEKAPFVER 93 (147)
Q Consensus 69 ~ei~k~l~~~Wk~ls~~eK~~Y~~~ 93 (147)
..+......++..|++++|..|..+
T Consensus 75 ~~~~~~~~~~~~vLt~eQk~~~~~l 99 (100)
T PF07813_consen 75 EERAKAQHALYAVLTPEQKEKFDQL 99 (100)
T ss_dssp HHHHHHHHHHHTTS-HHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHh
Confidence 4556677889999999999988764
No 51
>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=25.54 E-value=1.9e+02 Score=24.88 Aligned_cols=43 Identities=12% Similarity=0.080 Sum_probs=35.1
Q ss_pred HHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHHhhc
Q 032085 70 TVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYNKQL 112 (147)
Q Consensus 70 ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~~k~ 112 (147)
+.++..-..|+.+|..+|..+...+....+.+..++......-
T Consensus 6 ~~A~~A~~~W~~~~~~~R~~iL~~~a~~l~~~~~ela~~~~~E 48 (439)
T cd07081 6 AAAKVAQQGLSCKSQEMVDLIFRAAAEAAEDARIDLAKLAVSE 48 (439)
T ss_pred HHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556789999999999999999999999998888765443
No 52
>PF06213 CobT: Cobalamin biosynthesis protein CobT; InterPro: IPR006538 These proteins are CobT subunits of the aerobic cobalt chelatase (aerobic cobalamin biosynthesis pathway). Pseudomonas denitrificans CobT has been experimentally characterised [, ]. Aerobic cobalt chelatase consists of three subunits, CobT, CobN (IPR003672 from INTERPRO) and CobS (IPR006537 from INTERPRO). Cobalamin (vitamin B12) can be complexed with metal via the ATP-dependent reactions (aerobic pathway) (e.g., in P. denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in Salmonella typhimurium) [, ]. The corresponding cobalt chelatases are not homologous. However, aerobic cobalt chelatase subunits CobN and CobS are homologous to Mg-chelatase subunits BchH and BchI, respectively []. CobT, too, has been found to be remotely related to the third subunit of Mg-chelatase, BchD (involved in bacteriochlorophyll synthesis, e.g., in Rhodobacter capsulatus) []. Nomenclature note: CobT of the aerobic pathway P. denitrificans is not a homologue of CobT of the anaerobic pathway (Salmonella typhimurium, Escherichia coli). Therefore, annotation of any members of this family as nicotinate-mononucleotide--5,6-dimethylbenzimidazole phosphoribosyltransferases is erroneous.
Probab=24.81 E-value=3.6e+02 Score=21.57 Aligned_cols=63 Identities=13% Similarity=0.303 Sum_probs=28.8
Q ss_pred CCCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcC-CChHhhHHHHHH--HHHHHHHHHHHHHHHHhh
Q 032085 42 RPPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKS-MSEDEKAPFVER--AEKRKSDYNKNMQDYNKQ 111 (147)
Q Consensus 42 rP~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~-ls~~eK~~Y~~~--A~~~k~~y~~~~~~y~~k 111 (147)
-|+..++.|+ .|..|....+. ..++.+-..|+. |.+.--.....+ ...+...|...+......
T Consensus 140 ~~l~~al~l~--lr~rl~g~~~p-----~~~~~~~~~~R~~l~~~~g~~L~~L~~~~~dq~afa~~~~~ll~~ 205 (282)
T PF06213_consen 140 APLSEALALL--LRERLTGQPPP-----ESAEKVVELWRPWLEEKAGKDLDGLRDSLDDQAAFARAARDLLED 205 (282)
T ss_pred ccHHHHHHHH--HHHHHhCCCCc-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555444444 35556544332 445555566764 443332233322 233445555544444433
No 53
>PF15076 DUF4543: Domain of unknown function (DUF4543)
Probab=24.56 E-value=56 Score=20.97 Aligned_cols=22 Identities=14% Similarity=0.546 Sum_probs=17.5
Q ss_pred cCCCCCCCCCCCCHHHHHHHHH
Q 032085 33 AAKDPNKPKRPPSAFFVFMEEF 54 (147)
Q Consensus 33 ~~~dp~~PKrP~say~lF~~e~ 54 (147)
+...|+.|--||.-||+|++..
T Consensus 25 r~~K~GfpdepmrE~ml~l~~L 46 (75)
T PF15076_consen 25 RPRKPGFPDEPMREYMLHLQAL 46 (75)
T ss_pred CCCCCCCCcchHHHHHHHHHHH
Confidence 3456788999999999998743
No 54
>KOG2880 consensus SMAD6 interacting protein AMSH, contains JAB/MPN/Mov34 domain [Signal transduction mechanisms]
Probab=23.87 E-value=3.3e+02 Score=23.33 Aligned_cols=65 Identities=17% Similarity=0.275 Sum_probs=36.9
Q ss_pred CCHHHHHHHHH---HHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHHhhc
Q 032085 44 PSAFFVFMEEF---RKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYNKQL 112 (147)
Q Consensus 44 ~say~lF~~e~---r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~~k~ 112 (147)
-+||+||.+=. ...+ ..||+ . ..+-...-...+.|-+..-..-.++..++..+|..++.+|....
T Consensus 52 enafvLy~ry~tLfiEki-pkHrD-y--~s~k~ek~d~~~klk~~~~p~~deL~~~ll~rY~~eyn~y~~~K 119 (424)
T KOG2880|consen 52 ENAFVLYLRYITLFIEKI-PKHRD-Y--RSVKPEKEDIRKKLKEEAFPRIDELKAKLLKRYNVEYNEYDHSK 119 (424)
T ss_pred chhhhHHHHHHHHHHHhc-ccCcc-h--hhhchhHHHHHHHHHHHhhhhHHHHHHHHHHHHhhHHHHHHHHH
Confidence 46777765432 2222 34555 2 23333333334444466666666777888888888888887654
No 55
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription]
Probab=23.45 E-value=4.5 Score=36.49 Aligned_cols=44 Identities=18% Similarity=0.316 Sum_probs=40.0
Q ss_pred CCCHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhh
Q 032085 43 PPSAFFVFMEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEK 87 (147)
Q Consensus 43 P~say~lF~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK 87 (147)
-+++|++|+.+.+..+...+|+ ..+++++.+.|..|..|+...+
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 6788999999999999999999 9999999999999999994444
No 56
>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=21.91 E-value=2.6e+02 Score=23.75 Aligned_cols=43 Identities=16% Similarity=0.001 Sum_probs=34.7
Q ss_pred HHHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHHhh
Q 032085 69 ATVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYNKQ 111 (147)
Q Consensus 69 ~ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~~k 111 (147)
.+.++..-..|+.++..+|..+...+....+.+..++......
T Consensus 4 ~~~a~~a~~~w~~~~~~~R~~~L~~~a~~l~~~~~el~~~~~~ 46 (434)
T cd07133 4 LERQKAAFLANPPPSLEERRDRLDRLKALLLDNQDALAEAISA 46 (434)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556677999999999999999999999998888876543
No 57
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=21.89 E-value=2e+02 Score=23.86 Aligned_cols=38 Identities=18% Similarity=0.446 Sum_probs=28.7
Q ss_pred HHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHHhhc
Q 032085 75 AGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYNKQL 112 (147)
Q Consensus 75 l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~~k~ 112 (147)
-...|..||++.|+...+.+.+..........++....
T Consensus 243 s~~~w~~L~~e~q~il~~aa~e~~~~~~~~~~~~e~~~ 280 (332)
T COG1638 243 SKAFWDSLPEEDQTILLEAAKEAAEEQRKLVEELEDEL 280 (332)
T ss_pred cHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34679999999999999988887766666555554433
No 58
>smart00271 DnaJ DnaJ molecular chaperone homology domain.
Probab=21.51 E-value=1.6e+02 Score=17.06 Aligned_cols=34 Identities=21% Similarity=0.348 Sum_probs=20.0
Q ss_pred HHHHHHHHHhCCCCCC-----HHHHHHHHHHHhcCCChH
Q 032085 52 EEFRKQFKEAHPNNKS-----VATVGKAAGEKWKSMSED 85 (147)
Q Consensus 52 ~e~r~~~k~~~p~~~~-----~~ei~k~l~~~Wk~ls~~ 85 (147)
+..+..++.-||+... ..+....|...|..|.+.
T Consensus 20 ~ay~~l~~~~HPD~~~~~~~~~~~~~~~l~~Ay~~L~~~ 58 (60)
T smart00271 20 KAYRKLALKYHPDKNPGDKEEAEEKFKEINEAYEVLSDP 58 (60)
T ss_pred HHHHHHHHHHCcCCCCCchHHHHHHHHHHHHHHHHHcCC
Confidence 3445556677888333 345666677777666543
No 59
>PHA03102 Small T antigen; Reviewed
Probab=21.39 E-value=1.5e+02 Score=21.97 Aligned_cols=37 Identities=19% Similarity=0.246 Sum_probs=25.1
Q ss_pred HHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhh
Q 032085 51 MEEFRKQFKEAHPNNKSVATVGKAAGEKWKSMSEDEK 87 (147)
Q Consensus 51 ~~e~r~~~k~~~p~~~~~~ei~k~l~~~Wk~ls~~eK 87 (147)
.+..|..++.-||+.-...+.++.|...|..|++..+
T Consensus 25 KkAYr~la~~~HPDkgg~~e~~k~in~Ay~~L~d~~~ 61 (153)
T PHA03102 25 RKAYLRKCLEFHPDKGGDEEKMKELNTLYKKFRESVK 61 (153)
T ss_pred HHHHHHHHHHHCcCCCchhHHHHHHHHHHHHHhhHHH
Confidence 3455666778899843445677778888887776544
No 60
>PF15581 Imm35: Immunity protein 35
Probab=20.76 E-value=2.1e+02 Score=19.41 Aligned_cols=25 Identities=8% Similarity=0.340 Sum_probs=19.3
Q ss_pred CHHHHHHHHHHHhcCCChHhhHHHH
Q 032085 67 SVATVGKAAGEKWKSMSEDEKAPFV 91 (147)
Q Consensus 67 ~~~ei~k~l~~~Wk~ls~~eK~~Y~ 91 (147)
+..-+...|...|+.|+.++=..-.
T Consensus 31 ~i~~l~~lIe~eWRGl~~~qV~~kl 55 (93)
T PF15581_consen 31 TIRNLESLIEHEWRGLPEEQVLYKL 55 (93)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHH
Confidence 4567788899999999998764433
No 61
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-associati
Probab=20.48 E-value=50 Score=21.45 Aligned_cols=50 Identities=8% Similarity=0.169 Sum_probs=29.7
Q ss_pred CCHHHHHHHHHHHhcCCC------hHhhHHHHHHHH-HHHHHHHHHHHHHHhhcccC
Q 032085 66 KSVATVGKAAGEKWKSMS------EDEKAPFVERAE-KRKSDYNKNMQDYNKQLADG 115 (147)
Q Consensus 66 ~~~~ei~k~l~~~Wk~ls------~~eK~~Y~~~A~-~~k~~y~~~~~~y~~k~~~~ 115 (147)
+.+..|+..||.-|+.|- ..+=..+..... ...++-..-+..|..+.+..
T Consensus 5 ~~l~~ia~~lG~dW~~LAr~Lg~~~~dI~~i~~~~~~~~~eq~~~mL~~W~~r~g~~ 61 (84)
T cd08317 5 IRLADISNLLGSDWPQLARELGVSETDIDLIKAENPNSLAQQAQAMLKLWLEREGKK 61 (84)
T ss_pred chHHHHHHHHhhHHHHHHHHcCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHhcCCc
Confidence 678899999999998654 333222222211 12244555567787776643
No 62
>PF03480 SBP_bac_7: Bacterial extracellular solute-binding protein, family 7; InterPro: IPR018389 This family of proteins are involved in binding extracellular solutes for transport across the bacterial cytoplasmic membrane. This family includes a C4-dicarboxylate-binding protein DctP [, ] and the sialic acid-binding protein SiaP. The structure of the SiaP receptor has revealed an overall topology similar to ATP binding cassette ESR (extracytoplasmic solute receptors) proteins []. Upon binding of sialic acid, SiaP undergoes domain closure about a hinge region and kinking of an alpha-helix hinge component [].; GO: 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 2HZK_C 2HZL_B 2HPG_C 2XWI_A 2XWK_A 2WX9_A 2CEY_A 2WYP_A 3B50_A 2CEX_B ....
Probab=20.31 E-value=1.9e+02 Score=22.74 Aligned_cols=31 Identities=10% Similarity=0.401 Sum_probs=22.1
Q ss_pred HHhcCCChHhhHHHHHHHHHHHHHHHHHHHH
Q 032085 77 EKWKSMSEDEKAPFVERAEKRKSDYNKNMQD 107 (147)
Q Consensus 77 ~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~ 107 (147)
..|..||++.|+...+.+.+....+...+..
T Consensus 214 ~~w~~L~~e~q~~l~~~~~~~~~~~~~~~~~ 244 (286)
T PF03480_consen 214 DWWDSLPDEDQEALDDAADEAEARAREYYEA 244 (286)
T ss_dssp HHHHHS-HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhcCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5699999999999998887765555444433
No 63
>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=20.21 E-value=2.8e+02 Score=23.70 Aligned_cols=42 Identities=7% Similarity=-0.028 Sum_probs=34.2
Q ss_pred HHHHHHHHHhcCCChHhhHHHHHHHHHHHHHHHHHHHHHHhh
Q 032085 70 TVGKAAGEKWKSMSEDEKAPFVERAEKRKSDYNKNMQDYNKQ 111 (147)
Q Consensus 70 ei~k~l~~~Wk~ls~~eK~~Y~~~A~~~k~~y~~~~~~y~~k 111 (147)
+.++..-..|..|+..+|..+........+.+..++..-...
T Consensus 5 ~~A~~A~~~w~~~~~~~R~~~L~~~a~~l~~~~~~l~~~~~~ 46 (443)
T cd07132 5 RRAREAFSSGKTRPLEFRIQQLEALLRMLEENEDEIVEALAK 46 (443)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 445556678999999999999999999888888888776554
No 64
>PF06628 Catalase-rel: Catalase-related immune-responsive; InterPro: IPR010582 Catalases (1.11.1.6 from EC) are antioxidant enzymes that catalyse the conversion of hydrogen peroxide to water and molecular oxygen, serving to protect cells from its toxic effects []. Hydrogen peroxide is produced as a consequence of oxidative cellular metabolism and can be converted to the highly reactive hydroxyl radical via transition metals, this radical being able to damage a wide variety of molecules within a cell, leading to oxidative stress and cell death. Catalases act to neutralise hydrogen peroxide toxicity, and are produced by all aerobic organisms ranging from bacteria to man. Most catalases are mono-functional, haem-containing enzymes, although there are also bifunctional haem-containing peroxidase/catalases (IPR000763 from INTERPRO) that are closely related to plant peroxidases, and non-haem, manganese-containing catalases (IPR007760 from INTERPRO) that are found in bacteria []. This entry represents a small conserved region within catalase enzymes that carries the immune-responsive amphipathic octa-peptide that is recognised by T cells [].; PDB: 2CAH_A 1NM0_A 1H7K_A 1E93_A 1H6N_A 3HB6_A 2CAG_A 1M85_A 1MQF_A 1A4E_C ....
Probab=20.01 E-value=97 Score=19.38 Aligned_cols=19 Identities=26% Similarity=0.569 Sum_probs=15.2
Q ss_pred HHHHHhcCCChHhhHHHHH
Q 032085 74 AAGEKWKSMSEDEKAPFVE 92 (147)
Q Consensus 74 ~l~~~Wk~ls~~eK~~Y~~ 92 (147)
..+..|+.|++.+|..+..
T Consensus 12 Qa~~ly~~l~~~er~~lv~ 30 (68)
T PF06628_consen 12 QARDLYRVLSDEERERLVE 30 (68)
T ss_dssp HHHHHHHHSSHHHHHHHHH
T ss_pred hHHHHHHHCCHHHHHHHHH
Confidence 4567899999999887775
Done!