Query 032419
Match_columns 141
No_of_seqs 199 out of 1033
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 13:51:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032419.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032419hhsearch_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 5.7E-26 1.2E-30 154.4 11.4 89 18-107 3-93 (94)
2 cd01389 MATA_HMG-box MATA_HMG- 99.9 8.9E-22 1.9E-26 128.8 8.2 72 37-109 1-72 (77)
3 cd01388 SOX-TCF_HMG-box SOX-TC 99.9 3.2E-21 6.9E-26 124.8 8.2 70 37-107 1-70 (72)
4 PF00505 HMG_box: HMG (high mo 99.8 1E-20 2.2E-25 120.5 9.1 69 38-107 1-69 (69)
5 cd01390 HMGB-UBF_HMG-box HMGB- 99.8 3.1E-20 6.6E-25 117.2 9.1 65 38-103 1-65 (66)
6 smart00398 HMG high mobility g 99.8 5E-20 1.1E-24 117.0 9.2 70 37-107 1-70 (70)
7 PF09011 HMG_box_2: HMG-box do 99.8 4.8E-20 1E-24 119.5 9.2 72 35-107 1-73 (73)
8 COG5648 NHP6B Chromatin-associ 99.8 3.4E-20 7.4E-25 140.3 6.9 90 26-116 59-148 (211)
9 cd00084 HMG-box High Mobility 99.8 2.8E-18 6E-23 107.7 9.0 65 38-103 1-65 (66)
10 KOG0381 HMG box-containing pro 99.8 8.4E-18 1.8E-22 113.8 10.7 76 34-110 17-95 (96)
11 KOG0527 HMG-box transcription 99.8 1.2E-18 2.5E-23 141.4 6.3 80 31-111 56-135 (331)
12 KOG0526 Nucleosome-binding fac 99.7 8.6E-17 1.9E-21 135.3 7.2 80 25-109 523-602 (615)
13 KOG3248 Transcription factor T 99.4 5.8E-13 1.3E-17 107.3 7.0 77 37-114 191-267 (421)
14 KOG4715 SWI/SNF-related matrix 99.3 3.6E-12 7.7E-17 102.0 8.3 80 30-110 57-136 (410)
15 KOG0528 HMG-box transcription 99.2 1.7E-11 3.6E-16 102.7 2.9 79 34-113 322-400 (511)
16 KOG2746 HMG-box transcription 98.9 1.3E-09 2.9E-14 94.3 4.8 87 15-102 159-247 (683)
17 PF14887 HMG_box_5: HMG (high 98.4 4.1E-06 8.8E-11 54.6 8.1 75 37-113 3-77 (85)
18 PF04690 YABBY: YABBY protein; 97.6 0.00015 3.2E-09 54.2 5.8 49 32-81 116-164 (170)
19 PF06382 DUF1074: Protein of u 97.3 0.0018 4E-08 48.5 7.7 49 42-95 83-131 (183)
20 COG5648 NHP6B Chromatin-associ 97.2 0.0003 6.5E-09 53.9 3.1 69 35-104 141-209 (211)
21 PF08073 CHDNT: CHDNT (NUC034) 96.7 0.0021 4.5E-08 39.4 3.2 40 42-82 13-52 (55)
22 PF04769 MAT_Alpha1: Mating-ty 94.8 0.075 1.6E-06 40.8 5.3 56 31-93 37-92 (201)
23 PF06244 DUF1014: Protein of u 94.8 0.05 1.1E-06 38.6 4.0 49 34-83 69-117 (122)
24 TIGR03481 HpnM hopanoid biosyn 89.8 1.1 2.3E-05 34.2 5.7 46 64-109 64-111 (198)
25 PRK15117 ABC transporter perip 88.3 1.6 3.5E-05 33.5 5.8 46 64-109 68-115 (211)
26 KOG3223 Uncharacterized conser 83.1 1.8 4E-05 33.1 3.7 53 36-92 162-215 (221)
27 PF05494 Tol_Tol_Ttg2: Toluene 81.4 2.3 5E-05 31.1 3.7 45 64-108 38-84 (170)
28 PF13875 DUF4202: Domain of un 74.2 6.4 0.00014 29.9 4.3 40 43-86 130-169 (185)
29 PF12881 NUT_N: NUT protein N 73.0 10 0.00022 31.1 5.5 67 42-109 229-296 (328)
30 COG2854 Ttg2D ABC-type transpo 69.0 7.3 0.00016 30.0 3.6 44 70-113 77-121 (202)
31 PF11304 DUF3106: Protein of u 64.8 31 0.00068 23.6 5.9 24 69-92 12-35 (107)
32 PRK10363 cpxP periplasmic repr 53.0 40 0.00086 25.2 5.0 39 68-107 112-150 (166)
33 PRK12751 cpxP periplasmic stre 49.3 41 0.00089 24.9 4.6 33 69-101 119-151 (162)
34 PF01352 KRAB: KRAB box; Inte 43.6 19 0.00041 20.4 1.6 28 66-93 3-31 (41)
35 PRK12750 cpxP periplasmic repr 43.3 66 0.0014 23.9 5.0 34 70-103 127-160 (170)
36 PF00887 ACBP: Acyl CoA bindin 42.9 86 0.0019 20.2 5.0 53 45-99 30-86 (87)
37 PRK10236 hypothetical protein; 42.0 26 0.00056 27.6 2.7 26 69-94 118-143 (237)
38 PRK09706 transcriptional repre 41.9 84 0.0018 21.8 5.2 45 68-112 87-131 (135)
39 PF06945 DUF1289: Protein of u 37.6 51 0.0011 19.4 2.9 24 65-93 23-46 (51)
40 PF04871 Uso1_p115_C: Uso1 / p 36.5 26 0.00057 25.1 1.8 15 101-115 98-112 (136)
41 PF09164 VitD-bind_III: Vitami 33.6 1.3E+02 0.0028 19.1 4.9 33 43-76 9-41 (68)
42 KOG3838 Mannose lectin ERGIC-5 31.0 57 0.0012 28.0 3.2 36 80-115 269-304 (497)
43 KOG1610 Corticosteroid 11-beta 30.6 1.5E+02 0.0032 24.6 5.4 49 47-95 187-247 (322)
44 TIGR00787 dctP tripartite ATP- 28.5 1.4E+02 0.003 23.0 4.9 30 74-103 213-242 (257)
45 cd07081 ALDH_F20_ACDH_EutE-lik 28.3 1.5E+02 0.0033 25.2 5.4 44 68-111 6-49 (439)
46 PF12650 DUF3784: Domain of un 26.0 50 0.0011 21.7 1.7 16 76-91 25-40 (97)
47 PTZ00037 DnaJ_C chaperone prot 25.7 1.5E+02 0.0032 25.3 4.8 42 49-90 46-87 (421)
48 PRK10455 periplasmic protein; 25.6 1.5E+02 0.0032 21.8 4.3 26 69-94 119-144 (161)
49 KOG1827 Chromatin remodeling c 25.1 4.2 9.2E-05 36.3 -4.6 44 41-85 552-595 (629)
50 KOG0416 Ubiquitin-protein liga 24.6 73 0.0016 24.1 2.5 23 93-115 129-151 (189)
51 KOG4032 Uncharacterized conser 24.4 88 0.0019 23.7 2.9 28 65-92 86-113 (184)
52 COG1638 DctP TRAP-type C4-dica 23.4 1.9E+02 0.0041 23.7 4.9 39 72-110 242-280 (332)
53 PHA02662 ORF131 putative membr 22.2 2.1E+02 0.0046 22.4 4.7 24 64-87 74-97 (226)
54 cd07133 ALDH_CALDH_CalB Conife 22.0 2.6E+02 0.0056 23.5 5.6 44 68-111 5-48 (434)
55 KOG2880 SMAD6 interacting prot 21.9 3.9E+02 0.0085 22.7 6.4 64 43-110 53-119 (424)
56 PF03480 SBP_bac_7: Bacterial 21.9 1.7E+02 0.0036 22.8 4.3 31 74-104 213-243 (286)
57 PF07813 LTXXQ: LTXXQ motif fa 21.8 1.6E+02 0.0035 18.7 3.6 25 67-91 75-99 (100)
58 smart00271 DnaJ DnaJ molecular 21.6 1.6E+02 0.0034 16.9 3.2 33 51-83 21-58 (60)
59 cd08785 CARD_CARD9-like Caspas 21.6 72 0.0016 21.0 1.8 17 37-53 59-75 (86)
60 cd07132 ALDH_F3AB Aldehyde deh 21.5 2.5E+02 0.0054 23.7 5.4 44 68-111 5-48 (443)
61 cd07122 ALDH_F20_ACDH Coenzyme 21.3 2.4E+02 0.0053 24.0 5.3 42 69-110 7-48 (436)
62 PRK14296 chaperone protein Dna 21.2 1.8E+02 0.0039 24.2 4.5 39 51-90 24-66 (372)
63 PRK14291 chaperone protein Dna 20.9 1.9E+02 0.0041 24.1 4.6 39 50-89 22-64 (382)
64 PF15076 DUF4543: Domain of un 20.0 1.1E+02 0.0024 19.4 2.3 21 31-51 25-45 (75)
No 1
>PTZ00199 high mobility group protein; Provisional
Probab=99.94 E-value=5.7e-26 Score=154.41 Aligned_cols=89 Identities=44% Similarity=0.696 Sum_probs=82.9
Q ss_pred CCCCCcccccCCCCCCCCCCCCCCCcHHHHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhcCCChHhhHhHHHHHHHH
Q 032419 18 NKKPAKAGRKSGKAAKDPNKPKRPASAFFVFMEEFREQYKKDHPKNKS--VAAVGKAGGEKWKSMSEADKAPYVAKAEKR 95 (141)
Q Consensus 18 ~k~~~~~~kk~~k~~~dp~~PKrP~say~lF~~e~r~~~~~~~p~~~~--~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~ 95 (141)
++.+++.+++++++.+||++|+||+|||||||+++|..|..+||+ ++ +++|+++||++|+.||+++|.+|.++|..+
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 355667777888889999999999999999999999999999999 64 899999999999999999999999999999
Q ss_pred HHHHHHHHHHHH
Q 032419 96 KVEYEKDMKNYN 107 (141)
Q Consensus 96 k~~y~~e~~~y~ 107 (141)
+.+|..+|..|.
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=99.86 E-value=8.9e-22 Score=128.82 Aligned_cols=72 Identities=26% Similarity=0.430 Sum_probs=69.6
Q ss_pred CCCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHHHh
Q 032419 37 KPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRR 109 (141)
Q Consensus 37 ~PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~~~ 109 (141)
+|+||+|||||||++.|..|..+||+ +++.+|+++||.+|+.|++++|++|.++|..++++|..++++|.-.
T Consensus 1 ~~kRP~naf~lf~~~~r~~~~~~~p~-~~~~eisk~~g~~Wk~ls~eeK~~y~~~A~~~k~~~~~~~p~Yky~ 72 (77)
T cd01389 1 KIPRPRNAFILYRQDKHAQLKTENPG-LTNNEISRIIGRMWRSESPEVKAYYKELAEEEKERHAREYPDYKYT 72 (77)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHCCC-CCHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHCCCCccc
Confidence 58999999999999999999999999 8999999999999999999999999999999999999999999864
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=99.85 E-value=3.2e-21 Score=124.75 Aligned_cols=70 Identities=33% Similarity=0.547 Sum_probs=67.7
Q ss_pred CCCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHH
Q 032419 37 KPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYN 107 (141)
Q Consensus 37 ~PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~ 107 (141)
+.|||+|||||||+++|..++.+||+ +++.+|+++||+.|+.||+++|++|.++|..++.+|..++++|+
T Consensus 1 ~iKrP~naf~~F~~~~r~~~~~~~p~-~~~~eisk~l~~~Wk~ls~~eK~~y~~~a~~~k~~y~~~~p~y~ 70 (72)
T cd01388 1 HIKRPMNAFMLFSKRHRRKVLQEYPL-KENRAISKILGDRWKALSNEEKQPYYEEAKKLKELHMKLYPDYK 70 (72)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHCcCCC
Confidence 36899999999999999999999999 99999999999999999999999999999999999999999986
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=1e-20 Score=120.53 Aligned_cols=69 Identities=42% Similarity=0.758 Sum_probs=65.7
Q ss_pred CCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHH
Q 032419 38 PKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYN 107 (141)
Q Consensus 38 PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~ 107 (141)
|+||+|||+|||.+++..+...||+ ++..+|+++||.+|++||+++|.+|.+.|..++..|..+++.|+
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=99.83 E-value=3.1e-20 Score=117.19 Aligned_cols=65 Identities=54% Similarity=0.844 Sum_probs=63.7
Q ss_pred CCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHH
Q 032419 38 PKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDM 103 (141)
Q Consensus 38 PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~ 103 (141)
||+|+|||++|++++|..+...||+ +++.+|++.||.+|+.||+++|++|.+.|..++.+|..+|
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=5e-20 Score=116.97 Aligned_cols=70 Identities=49% Similarity=0.806 Sum_probs=67.9
Q ss_pred CCCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHH
Q 032419 37 KPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYN 107 (141)
Q Consensus 37 ~PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~ 107 (141)
+|++|+|||+||++++|..+..+||+ +++.+|+++||.+|+.|++++|.+|.++|..++.+|..++..|+
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 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=99.83 E-value=4.8e-20 Score=119.49 Aligned_cols=72 Identities=46% Similarity=0.807 Sum_probs=63.8
Q ss_pred CCCCCCCCcHHHHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHH
Q 032419 35 PNKPKRPASAFFVFMEEFREQYKKD-HPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYN 107 (141)
Q Consensus 35 p~~PKrP~say~lF~~e~r~~~~~~-~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~ 107 (141)
|++||+|+|||+||+.+++..+... ++. .++.++++.|+..|++||+++|.+|.++|..++.+|..+|..|+
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 6899999999999999999999988 665 78999999999999999999999999999999999999999985
No 8
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=99.81 E-value=3.4e-20 Score=140.35 Aligned_cols=90 Identities=33% Similarity=0.692 Sum_probs=85.5
Q ss_pred ccCCCCCCCCCCCCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHH
Q 032419 26 RKSGKAAKDPNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKN 105 (141)
Q Consensus 26 kk~~k~~~dp~~PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~ 105 (141)
+..+++.+||+.||||+||||+|+.++|..|...+|. +++.+|.++||++|++|++++|.+|...|..++++|..++..
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 5667889999999999999999999999999999999 899999999999999999999999999999999999999999
Q ss_pred HHHhCCCCCCC
Q 032419 106 YNRRQAEGTKP 116 (141)
Q Consensus 106 y~~~~~~~~~~ 116 (141)
|..+++.....
T Consensus 138 y~~k~~~~~~~ 148 (211)
T COG5648 138 YNKKLPNKAPI 148 (211)
T ss_pred hhcccCCCCCC
Confidence 99999886653
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=99.77 E-value=2.8e-18 Score=107.73 Aligned_cols=65 Identities=51% Similarity=0.812 Sum_probs=63.1
Q ss_pred CCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHH
Q 032419 38 PKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDM 103 (141)
Q Consensus 38 PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~ 103 (141)
|+||+|||++|+++.|..+...||+ +++.+|++.||.+|+.|++++|.+|.++|..++..|..++
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 7999999999999999999999999 8999999999999999999999999999999999998875
No 10
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=99.76 E-value=8.4e-18 Score=113.76 Aligned_cols=76 Identities=47% Similarity=0.788 Sum_probs=72.5
Q ss_pred CC--CCCCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHH-HHHHhC
Q 032419 34 DP--NKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMK-NYNRRQ 110 (141)
Q Consensus 34 dp--~~PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~-~y~~~~ 110 (141)
+| +.|+||++||++|+.+.|..++..||+ +++.+|+++||.+|++|++++|++|...|..++.+|..+|. .|+..+
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 56 599999999999999999999999999 99999999999999999999999999999999999999999 888754
No 11
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=99.75 E-value=1.2e-18 Score=141.38 Aligned_cols=80 Identities=30% Similarity=0.555 Sum_probs=74.8
Q ss_pred CCCCCCCCCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHHHhC
Q 032419 31 AAKDPNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQ 110 (141)
Q Consensus 31 ~~~dp~~PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~~~~ 110 (141)
......+.||||||||+|++..|.+|..+||. +.+.||+|+||.+|+.|+++||.+|+++|++++..|.+++++|+.+-
T Consensus 56 ~k~~~~hIKRPMNAFMVWSq~~RRkma~qnP~-mHNSEISK~LG~~WK~Lse~EKrPFi~EAeRLR~~HmkehPdYKYRP 134 (331)
T KOG0527|consen 56 DKTSTDRIKRPMNAFMVWSQGQRRKLAKQNPK-MHNSEISKRLGAEWKLLSEEEKRPFVDEAERLRAQHMKEYPDYKYRP 134 (331)
T ss_pred CCCCccccCCCcchhhhhhHHHHHHHHHhCcc-hhhHHHHHHHHHHHhhcCHhhhccHHHHHHHHHHHHHHhCCCccccc
Confidence 44556789999999999999999999999999 89999999999999999999999999999999999999999999854
Q ss_pred C
Q 032419 111 A 111 (141)
Q Consensus 111 ~ 111 (141)
-
T Consensus 135 R 135 (331)
T KOG0527|consen 135 R 135 (331)
T ss_pred c
Confidence 3
No 12
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=99.67 E-value=8.6e-17 Score=135.34 Aligned_cols=80 Identities=45% Similarity=0.718 Sum_probs=74.8
Q ss_pred cccCCCCCCCCCCCCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHH
Q 032419 25 GRKSGKAAKDPNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMK 104 (141)
Q Consensus 25 ~kk~~k~~~dp~~PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~ 104 (141)
+.++.++.+||++||||+||||||++..|..|+.. + +++++|++.+|.+|+.|+. |.+|.+.|+.++++|+.+|.
T Consensus 523 ~~k~~kk~kdpnapkra~sa~m~w~~~~r~~ik~d--g-i~~~dv~kk~g~~wk~ms~--k~~we~ka~~dk~ry~~em~ 597 (615)
T KOG0526|consen 523 KKKKGKKKKDPNAPKRATSAYMLWLNASRESIKED--G-ISVGDVAKKAGEKWKQMSA--KEEWEDKAAVDKQRYEDEMK 597 (615)
T ss_pred cccCcccCCCCCCCccchhHHHHHHHhhhhhHhhc--C-chHHHHHHHHhHHHhhhcc--cchhhHHHHHHHHHHHHHHH
Confidence 34777899999999999999999999999999987 5 8999999999999999999 99999999999999999999
Q ss_pred HHHHh
Q 032419 105 NYNRR 109 (141)
Q Consensus 105 ~y~~~ 109 (141)
+|+..
T Consensus 598 ~yk~g 602 (615)
T KOG0526|consen 598 EYKNG 602 (615)
T ss_pred hhcCC
Confidence 99943
No 13
>KOG3248 consensus Transcription factor TCF-4 [Transcription]
Probab=99.40 E-value=5.8e-13 Score=107.27 Aligned_cols=77 Identities=25% Similarity=0.443 Sum_probs=71.7
Q ss_pred CCCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 032419 37 KPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQAEGT 114 (141)
Q Consensus 37 ~PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~~~~~~~~ 114 (141)
..|+|+||||||+++.|.+|..++.- ....+|.++||.+|..||-+|..+|.++|+++++-|.+.+..|.+....+.
T Consensus 191 hiKKPLNAFmlyMKEmRa~vvaEctl-KeSAaiNqiLGrRWH~LSrEEQAKYyElArKerqlH~qlYP~WSARdNYgK 267 (421)
T KOG3248|consen 191 HIKKPLNAFMLYMKEMRAKVVAECTL-KESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSARDNYGK 267 (421)
T ss_pred cccccHHHHHHHHHHHHHHHHHHhhh-hhHHHHHHHHhHHHhhhhHHHHHHHHHHHHHHHHHHHHhcCCcchhhhhhh
Confidence 77999999999999999999999986 678899999999999999999999999999999999999999998776653
No 14
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=99.35 E-value=3.6e-12 Score=102.03 Aligned_cols=80 Identities=25% Similarity=0.556 Sum_probs=74.7
Q ss_pred CCCCCCCCCCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHHHh
Q 032419 30 KAAKDPNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRR 109 (141)
Q Consensus 30 k~~~dp~~PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~~~ 109 (141)
...+.|.+|-+|+-+||.|+...+++|+..||+ +...+|-++||.+|..|++++|+.|...++..+..|.+.|..|...
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 344567889999999999999999999999999 9999999999999999999999999999999999999999999875
Q ss_pred C
Q 032419 110 Q 110 (141)
Q Consensus 110 ~ 110 (141)
.
T Consensus 136 p 136 (410)
T KOG4715|consen 136 P 136 (410)
T ss_pred c
Confidence 4
No 15
>KOG0528 consensus HMG-box transcription factor SOX5 [Transcription]
Probab=99.15 E-value=1.7e-11 Score=102.65 Aligned_cols=79 Identities=23% Similarity=0.420 Sum_probs=72.2
Q ss_pred CCCCCCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHHHhCCCC
Q 032419 34 DPNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQAEG 113 (141)
Q Consensus 34 dp~~PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~~~~~~~ 113 (141)
.+...||||||||+|.++.|.+|...+|+ .-+..|+++||.+|+.|+..+|++|.+.-.++-..|.+.+++|+.+-..+
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 34578999999999999999999999999 77889999999999999999999999999999889999999999876553
No 16
>KOG2746 consensus HMG-box transcription factor Capicua and related proteins [Transcription]
Probab=98.91 E-value=1.3e-09 Score=94.29 Aligned_cols=87 Identities=22% Similarity=0.362 Sum_probs=77.0
Q ss_pred cccCCCCCcccccCCCCCCCCCCCCCCCcHHHHHHHHHH--HHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHH
Q 032419 15 LSVNKKPAKAGRKSGKAAKDPNKPKRPASAFFVFMEEFR--EQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKA 92 (141)
Q Consensus 15 ~~~~k~~~~~~kk~~k~~~dp~~PKrP~say~lF~~e~r--~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a 92 (141)
+.+..-....+..+...+++....+||||||+||++.+| ..+.+.||+ ..+..|+++||+.|-.|-+.||+.|.++|
T Consensus 159 l~kEqdsSs~kdgrspnkr~k~HirrPMnaf~ifskrhr~~g~vhq~~pn-~DNrtIskiLgewWytL~~~Ekq~yhdLa 237 (683)
T KOG2746|consen 159 LQKEQDSSSEKDGRSPNKRDKDHIRRPMNAFHIFSKRHRGEGRVHQRHPN-QDNRTISKILGEWWYTLGPNEKQKYHDLA 237 (683)
T ss_pred cchhhccccccccCCCCcCcchhhhhhhHHHHHHHhhcCCccchhccCcc-ccchhHHHHHhhhHhhhCchhhhhHHHHH
Confidence 344444445556677788888999999999999999999 899999999 89999999999999999999999999999
Q ss_pred HHHHHHHHHH
Q 032419 93 EKRKVEYEKD 102 (141)
Q Consensus 93 ~~~k~~y~~e 102 (141)
.+.+..|.++
T Consensus 238 ~Qvk~Ahfka 247 (683)
T KOG2746|consen 238 FQVKEAHFKA 247 (683)
T ss_pred HHHHHHHhhh
Confidence 9999999886
No 17
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A.
Probab=98.36 E-value=4.1e-06 Score=54.58 Aligned_cols=75 Identities=20% Similarity=0.385 Sum_probs=61.8
Q ss_pred CCCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHHHhCCCC
Q 032419 37 KPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQAEG 113 (141)
Q Consensus 37 ~PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~~~~~~~ 113 (141)
.|-.|-+|--||.+.....+...++. -...+ .+.+...|++|++.+|-+|...|.++..+|+.+|.+|+..++..
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 57788899999999999999999987 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=97.63 E-value=0.00015 Score=54.21 Aligned_cols=49 Identities=29% Similarity=0.430 Sum_probs=43.6
Q ss_pred CCCCCCCCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCC
Q 032419 32 AKDPNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMS 81 (141)
Q Consensus 32 ~~dp~~PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls 81 (141)
.+.|.+-.|-+|||..|+++....|+..||+ ++..|+....+..|...+
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 4455566678899999999999999999999 999999999999998776
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=97.26 E-value=0.0018 Score=48.48 Aligned_cols=49 Identities=29% Similarity=0.435 Sum_probs=42.3
Q ss_pred CcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHH
Q 032419 42 ASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKR 95 (141)
Q Consensus 42 ~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~ 95 (141)
-+||+-|+.+.|. .|.+ +...+++...+..|..|++.+|..|..++...
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 3789999999765 5567 89999999999999999999999999876543
No 20
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=97.20 E-value=0.0003 Score=53.93 Aligned_cols=69 Identities=23% Similarity=0.345 Sum_probs=62.2
Q ss_pred CCCCCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHH
Q 032419 35 PNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMK 104 (141)
Q Consensus 35 p~~PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~ 104 (141)
..+|+.|..+|+-|-..+|..+...+|+ ....+++++++..|..|++.-|.+|.+.+..++..|...++
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 3467888899999999999999999998 78899999999999999999999999999999999987654
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=96.72 E-value=0.0021 Score=39.36 Aligned_cols=40 Identities=20% Similarity=0.377 Sum_probs=35.9
Q ss_pred CcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCCh
Q 032419 42 ASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSE 82 (141)
Q Consensus 42 ~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~ 82 (141)
++.|-+|.+..|+.|...||+ +..+.|+.+|+..|+..+.
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=94.78 E-value=0.075 Score=40.79 Aligned_cols=56 Identities=20% Similarity=0.326 Sum_probs=39.6
Q ss_pred CCCCCCCCCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHH
Q 032419 31 AAKDPNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAE 93 (141)
Q Consensus 31 ~~~dp~~PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~ 93 (141)
.......++||+|+||+|..=.- .-.|+ ....+++..|+..|..=+- |..|.-.|.
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 34455678999999999976544 34455 6778999999999987433 444555443
No 23
>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=94.76 E-value=0.05 Score=38.59 Aligned_cols=49 Identities=18% Similarity=0.305 Sum_probs=41.6
Q ss_pred CCCCCCCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChH
Q 032419 34 DPNKPKRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEA 83 (141)
Q Consensus 34 dp~~PKrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~ 83 (141)
|..|-+|---||.-|+....+.|+.+||+ +..+++..+|-..|..-|++
T Consensus 69 drHPErR~KAAy~afeE~~Lp~lK~E~Pg-LrlsQ~kq~l~K~w~KSPeN 117 (122)
T PF06244_consen 69 DRHPERRMKAAYKAFEERRLPELKEENPG-LRLSQYKQMLWKEWQKSPEN 117 (122)
T ss_pred CCCcchhHHHHHHHHHHHHhHHHHhhCCC-chHHHHHHHHHHHHhcCCCC
Confidence 33333455589999999999999999999 99999999999999988764
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=89.84 E-value=1.1 Score=34.18 Aligned_cols=46 Identities=17% Similarity=0.432 Sum_probs=39.5
Q ss_pred CCHHHHHH-HHHHHhcCCChHhhHhHHHHHHH-HHHHHHHHHHHHHHh
Q 032419 64 KSVAAVGK-AGGEKWKSMSEADKAPYVAKAEK-RKVEYEKDMKNYNRR 109 (141)
Q Consensus 64 ~~~~ei~k-~l~~~Wk~Ls~~eK~~Y~~~a~~-~k~~y~~e~~~y~~~ 109 (141)
..+..|++ .||..|+.+++++|+.|...... ....|-..+..|...
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 56777766 68999999999999999999988 678899999998754
No 25
>PRK15117 ABC transporter periplasmic binding protein MlaC; Provisional
Probab=88.26 E-value=1.6 Score=33.51 Aligned_cols=46 Identities=22% Similarity=0.346 Sum_probs=38.6
Q ss_pred CCHHHHHH-HHHHHhcCCChHhhHhHHHHHHHH-HHHHHHHHHHHHHh
Q 032419 64 KSVAAVGK-AGGEKWKSMSEADKAPYVAKAEKR-KVEYEKDMKNYNRR 109 (141)
Q Consensus 64 ~~~~ei~k-~l~~~Wk~Ls~~eK~~Y~~~a~~~-k~~y~~e~~~y~~~ 109 (141)
..+..+++ .||..|+.+++++|+.|....... ..-|-..+..|...
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 56666665 689999999999999999988874 67899999999754
No 26
>KOG3223 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.12 E-value=1.8 Score=33.06 Aligned_cols=53 Identities=25% Similarity=0.420 Sum_probs=44.0
Q ss_pred CCC-CCCCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHH
Q 032419 36 NKP-KRPASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKA 92 (141)
Q Consensus 36 ~~P-KrP~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a 92 (141)
.+| +|-.-||.-|-....+.|+.+||+ +..+++-.+|-..|..-|++ ||...+
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 344 455578999999999999999999 99999999999999998875 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=81.41 E-value=2.3 Score=31.12 Aligned_cols=45 Identities=18% Similarity=0.367 Sum_probs=34.3
Q ss_pred CCHHHHHHH-HHHHhcCCChHhhHhHHHHHHHH-HHHHHHHHHHHHH
Q 032419 64 KSVAAVGKA-GGEKWKSMSEADKAPYVAKAEKR-KVEYEKDMKNYNR 108 (141)
Q Consensus 64 ~~~~ei~k~-l~~~Wk~Ls~~eK~~Y~~~a~~~-k~~y~~e~~~y~~ 108 (141)
..+..|++. ||..|+.|++++++.|....... ...|...+..|..
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 566766654 77899999999999999988874 6778888888875
No 28
>PF13875 DUF4202: Domain of unknown function (DUF4202)
Probab=74.24 E-value=6.4 Score=29.87 Aligned_cols=40 Identities=25% Similarity=0.473 Sum_probs=33.7
Q ss_pred cHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhH
Q 032419 43 SAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKA 86 (141)
Q Consensus 43 say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~ 86 (141)
-+-++|+..+...+...|.. ..|..+|...|+.||+.-++
T Consensus 130 vacLVFL~~~f~~F~~~~de----eK~v~Il~KTw~KMS~~g~~ 169 (185)
T PF13875_consen 130 VACLVFLEYYFEDFAAKHDE----EKIVDILRKTWRKMSERGHE 169 (185)
T ss_pred hHHHHhHHHHHHHHHhcCCH----HHHHHHHHHHHHHCCHHHHH
Confidence 35789999999999888843 57889999999999998764
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=73.03 E-value=10 Score=31.08 Aligned_cols=67 Identities=16% Similarity=0.151 Sum_probs=50.0
Q ss_pred CcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHH-HHHHHHHHh
Q 032419 42 ASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYE-KDMKNYNRR 109 (141)
Q Consensus 42 ~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~-~e~~~y~~~ 109 (141)
..||.+|+.-....|....|. ++..|-..+.-+.|...|.-+|-.|.++|++-++==. ++|+.-+-+
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 356777776666667777788 7888988999999999999999999999988654222 445444443
No 30
>COG2854 Ttg2D ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=69.03 E-value=7.3 Score=29.98 Aligned_cols=44 Identities=11% Similarity=0.219 Sum_probs=37.3
Q ss_pred HHHHHHHhcCCChHhhHhHHHHHHH-HHHHHHHHHHHHHHhCCCC
Q 032419 70 GKAGGEKWKSMSEADKAPYVAKAEK-RKVEYEKDMKNYNRRQAEG 113 (141)
Q Consensus 70 ~k~l~~~Wk~Ls~~eK~~Y~~~a~~-~k~~y~~e~~~y~~~~~~~ 113 (141)
...||.-|+.+++++++.|...... +...|-..|..|+.+...-
T Consensus 77 ~~vLGk~~k~aspeQ~~~F~~aF~~yl~q~Y~~aL~~Y~~q~~~v 121 (202)
T COG2854 77 KLVLGKYYKTASPEQRQAFFKAFRTYLEQTYGQALLDYKGQTLKV 121 (202)
T ss_pred HHHhccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHccCCCcee
Confidence 3458899999999999999998887 4678999999999877543
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=64.84 E-value=31 Score=23.59 Aligned_cols=24 Identities=17% Similarity=0.367 Sum_probs=11.4
Q ss_pred HHHHHHHHhcCCChHhhHhHHHHH
Q 032419 69 VGKAGGEKWKSMSEADKAPYVAKA 92 (141)
Q Consensus 69 i~k~l~~~Wk~Ls~~eK~~Y~~~a 92 (141)
+..-+...|..|++..+..+...|
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 344444555555555554444443
No 32
>PRK10363 cpxP periplasmic repressor CpxP; Reviewed
Probab=53.03 E-value=40 Score=25.19 Aligned_cols=39 Identities=10% Similarity=0.268 Sum_probs=30.9
Q ss_pred HHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHH
Q 032419 68 AVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYN 107 (141)
Q Consensus 68 ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~ 107 (141)
++.++-.++++.|++++|..|+..+++-...+.. +..+.
T Consensus 112 em~k~~nqmy~lLTPEQKaq~~~~~~~rm~~~~~-~~~~q 150 (166)
T PRK10363 112 EMAKVRNQMYRLLTPEQQAVLNEKHQQRMEQLRD-VTQWQ 150 (166)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHH-HHhcC
Confidence 4566677899999999999999988888877754 55443
No 33
>PRK12751 cpxP periplasmic stress adaptor protein CpxP; Reviewed
Probab=49.28 E-value=41 Score=24.90 Aligned_cols=33 Identities=12% Similarity=0.243 Sum_probs=25.2
Q ss_pred HHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHH
Q 032419 69 VGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEK 101 (141)
Q Consensus 69 i~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~ 101 (141)
..+..-+++..|++++|..|.+..++-......
T Consensus 119 ~~~~~~qmy~lLTPEQra~l~~~~e~r~~~~~~ 151 (162)
T PRK12751 119 MAKVRNQMYNLLTPEQKEALNKKHQERIEKLQQ 151 (162)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHh
Confidence 345556788999999999999987776665543
No 34
>PF01352 KRAB: KRAB box; InterPro: IPR001909 The Krueppel-associated box (KRAB) is a domain of around 75 amino acids that is found in the N-terminal part of about one third of eukaryotic Krueppel-type C2H2 zinc finger proteins (ZFPs) []. It is enriched in charged amino acids and can be divided into subregions A and B, which are predicted to fold into two amphipathic alpha-helices. The KRAB A and B boxes can be separated by variable spacer segments and many KRAB proteins contain only the A box []. The functions currently known for members of the KRAB-containing protein family include transcriptional repression of RNA polymerase I, II, and III promoters, binding and splicing of RNA, and control of nucleolus function. The KRAB domain functions as a transcriptional repressor when tethered to the template DNA by a DNA-binding domain. A sequence of 45 amino acids in the KRAB A subdomain has been shown to be necessary and sufficient for transcriptional repression. The B box does not repress by itself but does potentiate the repression exerted by the KRAB A subdomain [, ]. Gene silencing requires the binding of the KRAB domain to the RING-B box-coiled coil (RBCC) domain of the KAP-1/TIF1-beta corepressor. As KAP-1 binds to the heterochromatin proteins HP1, it has been proposed that the KRAB-ZFP-bound target gene could be silenced following recruitment to heterochromatin [, ]. KRAB-ZFPs probably constitute the single largest class of transcription factors within the human genome []. Although the function of KRAB-ZFPs is largely unknown, they appear to play important roles during cell differentiation and development. The KRAB domain is generally encoded by two exons. The regions coded by the two exons are known as KRAB-A and KRAB-B.; GO: 0003676 nucleic acid binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1V65_A.
Probab=43.57 E-value=19 Score=20.40 Aligned_cols=28 Identities=21% Similarity=0.241 Sum_probs=15.8
Q ss_pred HHHHHHHHH-HHhcCCChHhhHhHHHHHH
Q 032419 66 VAAVGKAGG-EKWKSMSEADKAPYVAKAE 93 (141)
Q Consensus 66 ~~ei~k~l~-~~Wk~Ls~~eK~~Y~~~a~ 93 (141)
+.+|+--++ +.|..|.+.+|.-|.+.-.
T Consensus 3 f~Dvav~fs~eEW~~L~~~Qk~ly~dvm~ 31 (41)
T PF01352_consen 3 FEDVAVYFSQEEWELLDPAQKNLYRDVML 31 (41)
T ss_dssp ----TT---HHHHHTS-HHHHHHHHHHHH
T ss_pred EEEEEEEcChhhcccccceecccchhHHH
Confidence 344444444 5699999999999987543
No 35
>PRK12750 cpxP periplasmic repressor CpxP; Reviewed
Probab=43.27 E-value=66 Score=23.86 Aligned_cols=34 Identities=15% Similarity=0.176 Sum_probs=28.0
Q ss_pred HHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHH
Q 032419 70 GKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDM 103 (141)
Q Consensus 70 ~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~ 103 (141)
.+...+.+..|++++|..|.+...+-...|...+
T Consensus 127 ~~~~~~~~~vLTpEQRak~~e~~~~r~~~~~~~~ 160 (170)
T PRK12750 127 LEKRHQMLSILTPEQKAKFQELQQERMQECQDKM 160 (170)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345568999999999999999888888887776
No 36
>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=42.89 E-value=86 Score=20.19 Aligned_cols=53 Identities=15% Similarity=0.325 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCC----hHhhHhHHHHHHHHHHHH
Q 032419 45 FFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMS----EADKAPYVAKAEKRKVEY 99 (141)
Q Consensus 45 y~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls----~~eK~~Y~~~a~~~k~~y 99 (141)
|-||.+.....+....|+...+....+ -..|+.|. ++-++.|.+........|
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 677777666555555666334443333 35688776 344566777666665554
No 37
>PRK10236 hypothetical protein; Provisional
Probab=41.99 E-value=26 Score=27.64 Aligned_cols=26 Identities=19% Similarity=0.420 Sum_probs=21.7
Q ss_pred HHHHHHHHhcCCChHhhHhHHHHHHH
Q 032419 69 VGKAGGEKWKSMSEADKAPYVAKAEK 94 (141)
Q Consensus 69 i~k~l~~~Wk~Ls~~eK~~Y~~~a~~ 94 (141)
+++.+...|..||+++++.+...-..
T Consensus 118 l~kll~~a~~kms~eE~~~L~~~l~~ 143 (237)
T PRK10236 118 LEQFLRNTWKKMDEEHKQEFLHAVDA 143 (237)
T ss_pred HHHHHHHHHHHCCHHHHHHHHHHHhh
Confidence 57889999999999999888765444
No 38
>PRK09706 transcriptional repressor DicA; Reviewed
Probab=41.90 E-value=84 Score=21.83 Aligned_cols=45 Identities=11% Similarity=0.169 Sum_probs=38.6
Q ss_pred HHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHHHhCCC
Q 032419 68 AVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQAE 112 (141)
Q Consensus 68 ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~~~~~~ 112 (141)
.-...|-..|+.|+++++.............|..-+.+|-.....
T Consensus 87 ~~~~~ll~~~~~L~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~ 131 (135)
T PRK09706 87 EDQKELLELFDALPESEQDAQLSEMRARVENFNKLFEELLKARKR 131 (135)
T ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 345688999999999999999999999999999999998776543
No 39
>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=37.59 E-value=51 Score=19.42 Aligned_cols=24 Identities=25% Similarity=0.620 Sum_probs=17.5
Q ss_pred CHHHHHHHHHHHhcCCChHhhHhHHHHHH
Q 032419 65 SVAAVGKAGGEKWKSMSEADKAPYVAKAE 93 (141)
Q Consensus 65 ~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~ 93 (141)
+..||.. |..|++++|........
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 4566655 99999999877665443
No 40
>PF04871 Uso1_p115_C: Uso1 / p115 like vesicle tethering protein, C terminal region; InterPro: IPR006955 This domain identifies a group of proteins, which are described as: General vesicular transport factor, Transcytosis associate protein (TAP) and Vesicle docking protein. This myosin-shaped molecule consists of an N-terminal globular head region, a coiled-coil tail which mediates dimerisation, and a short C-terminal acidic region []. p115 tethers COP1 vesicles to the Golgi by binding the coiled coil proteins giantin (on the vesicles) and GM130 (on the Golgi), via its C-terminal acidic region. It is required for intercisternal transport in the Golgi stack. This domain is found in the acidic C-terminal region, which binds to the golgins giantin and GM130. p115 is thought to juxtapose two membranes by binding giantin with one acidic region, and GM130 with another [].; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport, 0005737 cytoplasm, 0016020 membrane
Probab=36.53 E-value=26 Score=25.07 Aligned_cols=15 Identities=27% Similarity=0.335 Sum_probs=8.4
Q ss_pred HHHHHHHHhCCCCCC
Q 032419 101 KDMKNYNRRQAEGTK 115 (141)
Q Consensus 101 ~e~~~y~~~~~~~~~ 115 (141)
..+..|+..+..-..
T Consensus 98 ~K~~kyk~rLk~LG~ 112 (136)
T PF04871_consen 98 EKRKKYKERLKELGE 112 (136)
T ss_pred HHHHHHHHHHHHcCC
Confidence 445666666655444
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=33.62 E-value=1.3e+02 Score=19.10 Aligned_cols=33 Identities=9% Similarity=0.260 Sum_probs=24.3
Q ss_pred cHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 032419 43 SAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEK 76 (141)
Q Consensus 43 say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~ 76 (141)
+.|.=|-+.....++...|+ ++..+|..++.++
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 45777888888899999999 8888888777654
No 42
>KOG3838 consensus Mannose lectin ERGIC-53, involved in glycoprotein traffic [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.04 E-value=57 Score=27.96 Aligned_cols=36 Identities=25% Similarity=0.415 Sum_probs=29.9
Q ss_pred CChHhhHhHHHHHHHHHHHHHHHHHHHHHhCCCCCC
Q 032419 80 MSEADKAPYVAKAEKRKVEYEKDMKNYNRRQAEGTK 115 (141)
Q Consensus 80 Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~~~~~~~~~ 115 (141)
+.+.+|++|.+..+.....|.++...|.+.+++...
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 445688899999999999999999999988886554
No 43
>KOG1610 consensus Corticosteroid 11-beta-dehydrogenase and related short chain-type dehydrogenases [Secondary metabolites biosynthesis, transport and catabolism; General function prediction only]
Probab=30.60 E-value=1.5e+02 Score=24.58 Aligned_cols=49 Identities=16% Similarity=0.262 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHhC-------CC-----CCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHH
Q 032419 47 VFMEEFREQYKKDH-------PK-----NKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKR 95 (141)
Q Consensus 47 lF~~e~r~~~~~~~-------p~-----~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~ 95 (141)
.|+-..|.++..-. |+ ..+...+.+.+.+.|..||++.|+.|-+.+..+
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 46666676665321 22 124578899999999999999999998766654
No 44
>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=28.54 E-value=1.4e+02 Score=22.98 Aligned_cols=30 Identities=20% Similarity=0.086 Sum_probs=22.7
Q ss_pred HHHhcCCChHhhHhHHHHHHHHHHHHHHHH
Q 032419 74 GEKWKSMSEADKAPYVAKAEKRKVEYEKDM 103 (141)
Q Consensus 74 ~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~ 103 (141)
...|..||++.|....+.+...-..+...+
T Consensus 213 ~~~~~~L~~e~q~~i~~a~~~~~~~~~~~~ 242 (257)
T TIGR00787 213 KAFWKSLPPDLQAVVKEAAKEAGEYQRKLS 242 (257)
T ss_pred HHHHhcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 477999999999999887777655444433
No 45
>cd07081 ALDH_F20_ACDH_EutE-like Coenzyme A acylating aldehyde dehydrogenase (ACDH), Ethanolamine utilization protein EutE, and related proteins. Coenzyme A acylating aldehyde dehydrogenase (ACDH), an NAD+ and CoA-dependent acetaldehyde dehydrogenase, acetylating (EC=1.2.1.10), functions as a single enzyme (such as the Ethanolamine utilization protein, EutE, in Salmonella typhimurium) or as part of a multifunctional enzyme to convert acetaldehyde into acetyl-CoA. The E. coli aldehyde-alcohol dehydrogenase includes the functional domains, alcohol dehydrogenase (ADH), ACDH, and pyruvate-formate-lyase deactivase; and the Entamoeba histolytica aldehyde-alcohol dehydrogenase 2 (ALDH20A1) includes the functional domains ADH and ACDH, and may be critical enzymes in the fermentative pathway.
Probab=28.34 E-value=1.5e+02 Score=25.17 Aligned_cols=44 Identities=11% Similarity=0.053 Sum_probs=36.0
Q ss_pred HHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHHHhCC
Q 032419 68 AVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQA 111 (141)
Q Consensus 68 ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~~~~~ 111 (141)
+.++..-..|..+|..+|..+...+....+.+..++......-.
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 34455567899999999999999999999999999888766544
No 46
>PF12650 DUF3784: Domain of unknown function (DUF3784); InterPro: IPR017259 This group represents an uncharacterised conserved protein.
Probab=25.96 E-value=50 Score=21.74 Aligned_cols=16 Identities=31% Similarity=0.542 Sum_probs=13.6
Q ss_pred HhcCCChHhhHhHHHH
Q 032419 76 KWKSMSEADKAPYVAK 91 (141)
Q Consensus 76 ~Wk~Ls~~eK~~Y~~~ 91 (141)
-|+.||++||+.|...
T Consensus 25 Gyntms~eEk~~~D~~ 40 (97)
T PF12650_consen 25 GYNTMSKEEKEKYDKK 40 (97)
T ss_pred hcccCCHHHHHHhhHH
Confidence 3899999999999763
No 47
>PTZ00037 DnaJ_C chaperone protein; Provisional
Probab=25.74 E-value=1.5e+02 Score=25.30 Aligned_cols=42 Identities=17% Similarity=0.218 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHH
Q 032419 49 MEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVA 90 (141)
Q Consensus 49 ~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~ 90 (141)
-+..|...+.-||+.....+..+.|.+.|..|++.+|....+
T Consensus 46 KkAYrkla~k~HPDk~~~~e~F~~i~~AYevLsD~~kR~~YD 87 (421)
T PTZ00037 46 KKAYRKLAIKHHPDKGGDPEKFKEISRAYEVLSDPEKRKIYD 87 (421)
T ss_pred HHHHHHHHHHHCCCCCchHHHHHHHHHHHHHhccHHHHHHHh
Confidence 345666777889993234588899999999999877554444
No 48
>PRK10455 periplasmic protein; Reviewed
Probab=25.63 E-value=1.5e+02 Score=21.83 Aligned_cols=26 Identities=15% Similarity=0.215 Sum_probs=19.8
Q ss_pred HHHHHHHHhcCCChHhhHhHHHHHHH
Q 032419 69 VGKAGGEKWKSMSEADKAPYVAKAEK 94 (141)
Q Consensus 69 i~k~l~~~Wk~Ls~~eK~~Y~~~a~~ 94 (141)
.++....+|..|++++|+.|.+..++
T Consensus 119 ~~~~~~qiy~vLTPEQr~q~~~~~ek 144 (161)
T PRK10455 119 HMETQNKIYNVLTPEQKKQFNANFEK 144 (161)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 44455678999999999999876544
No 49
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription]
Probab=25.08 E-value=4.2 Score=36.27 Aligned_cols=44 Identities=16% Similarity=0.276 Sum_probs=39.7
Q ss_pred CCcHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhh
Q 032419 41 PASAFFVFMEEFREQYKKDHPKNKSVAAVGKAGGEKWKSMSEADK 85 (141)
Q Consensus 41 P~say~lF~~e~r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK 85 (141)
-+++|++|+.+.+..+...+|+ ..+++++.++|..|..|+...|
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 4588999999999999999999 8999999999999999994444
No 50
>KOG0416 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.57 E-value=73 Score=24.07 Aligned_cols=23 Identities=26% Similarity=0.413 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCC
Q 032419 93 EKRKVEYEKDMKNYNRRQAEGTK 115 (141)
Q Consensus 93 ~~~k~~y~~e~~~y~~~~~~~~~ 115 (141)
..+.+.|.+.+.+|..+-+..+.
T Consensus 129 l~~~~~Y~~~v~eY~~kYA~~~~ 151 (189)
T KOG0416|consen 129 LRDPEEYEEKVKEYIKKYATPEA 151 (189)
T ss_pred hcCHHHHHHHHHHHHHHhcChhh
Confidence 34578899999999888877664
No 51
>KOG4032 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.39 E-value=88 Score=23.74 Aligned_cols=28 Identities=7% Similarity=0.014 Sum_probs=16.2
Q ss_pred CHHHHHHHHHHHhcCCChHhhHhHHHHH
Q 032419 65 SVAAVGKAGGEKWKSMSEADKAPYVAKA 92 (141)
Q Consensus 65 ~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a 92 (141)
|..+|+..|-..|.......=..+..++
T Consensus 86 S~~~ia~~L~n~f~~~~~~N~~~ieell 113 (184)
T KOG4032|consen 86 SLPEIAQLLLNLFHDIQNGNYAIIEELL 113 (184)
T ss_pred CHHHHHHHHHHHHHHHHcccHHHHHHHH
Confidence 5667777777777665555444444433
No 52
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=23.36 E-value=1.9e+02 Score=23.74 Aligned_cols=39 Identities=18% Similarity=0.274 Sum_probs=30.1
Q ss_pred HHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHHHhC
Q 032419 72 AGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQ 110 (141)
Q Consensus 72 ~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~~~~ 110 (141)
+-...|..||++.|+...+.+.+..........+++...
T Consensus 242 ~s~~~w~~L~~e~q~il~~aa~e~~~~~~~~~~~~e~~~ 280 (332)
T COG1638 242 VSKAFWDSLPEEDQTILLEAAKEAAEEQRKLVEELEDEL 280 (332)
T ss_pred EcHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345789999999999999998887777666666555533
No 53
>PHA02662 ORF131 putative membrane protein; Provisional
Probab=22.21 E-value=2.1e+02 Score=22.40 Aligned_cols=24 Identities=21% Similarity=0.259 Sum_probs=20.6
Q ss_pred CCHHHHHHHHHHHhcCCChHhhHh
Q 032419 64 KSVAAVGKAGGEKWKSMSEADKAP 87 (141)
Q Consensus 64 ~~~~ei~k~l~~~Wk~Ls~~eK~~ 87 (141)
.++.-+.+.+.+....||+++|..
T Consensus 74 ~sf~lll~Al~Et~~~Lp~~qK~~ 97 (226)
T PHA02662 74 DALALASAALAETLAELPRADRLA 97 (226)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHH
Confidence 457788999999999999999864
No 54
>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=21.98 E-value=2.6e+02 Score=23.53 Aligned_cols=44 Identities=7% Similarity=-0.067 Sum_probs=35.5
Q ss_pred HHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHHHhCC
Q 032419 68 AVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQA 111 (141)
Q Consensus 68 ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~~~~~ 111 (141)
+.++.....|..++..+|..+...+......+..++......-.
T Consensus 5 ~~a~~a~~~w~~~~~~~R~~~L~~~a~~l~~~~~el~~~~~~e~ 48 (434)
T cd07133 5 ERQKAAFLANPPPSLEERRDRLDRLKALLLDNQDALAEAISADF 48 (434)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44555567799999999999999999999999988887665443
No 55
>KOG2880 consensus SMAD6 interacting protein AMSH, contains JAB/MPN/Mov34 domain [Signal transduction mechanisms]
Probab=21.94 E-value=3.9e+02 Score=22.68 Aligned_cols=64 Identities=16% Similarity=0.222 Sum_probs=34.9
Q ss_pred cHHHHHHHHH---HHHHHHhCCCCCCHHHHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHHHhC
Q 032419 43 SAFFVFMEEF---REQYKKDHPKNKSVAAVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQ 110 (141)
Q Consensus 43 say~lF~~e~---r~~~~~~~p~~~~~~ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~~~~ 110 (141)
+||+||.+=. ..+ ...||+ . ..+....-...+.|-+..-..-..+..+++.+|..++.+|....
T Consensus 53 nafvLy~ry~tLfiEk-ipkHrD-y--~s~k~ek~d~~~klk~~~~p~~deL~~~ll~rY~~eyn~y~~~K 119 (424)
T KOG2880|consen 53 NAFVLYLRYITLFIEK-IPKHRD-Y--RSVKPEKEDIRKKLKEEAFPRIDELKAKLLKRYNVEYNEYDHSK 119 (424)
T ss_pred hhhhHHHHHHHHHHHh-cccCcc-h--hhhchhHHHHHHHHHHHhhhhHHHHHHHHHHHHhhHHHHHHHHH
Confidence 6777765321 221 234555 2 22223333333444455555566677778888888888887644
No 56
>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=21.89 E-value=1.7e+02 Score=22.82 Aligned_cols=31 Identities=13% Similarity=0.311 Sum_probs=21.8
Q ss_pred HHHhcCCChHhhHhHHHHHHHHHHHHHHHHH
Q 032419 74 GEKWKSMSEADKAPYVAKAEKRKVEYEKDMK 104 (141)
Q Consensus 74 ~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~ 104 (141)
...|..||++.|+-..+.+......+...+.
T Consensus 213 ~~~w~~L~~e~q~~l~~~~~~~~~~~~~~~~ 243 (286)
T PF03480_consen 213 KDWWDSLPDEDQEALDDAADEAEARAREYYE 243 (286)
T ss_dssp HHHHHHS-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHhcCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3579999999999999887776554444333
No 57
>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=21.78 E-value=1.6e+02 Score=18.68 Aligned_cols=25 Identities=12% Similarity=0.129 Sum_probs=19.1
Q ss_pred HHHHHHHHHHhcCCChHhhHhHHHH
Q 032419 67 AAVGKAGGEKWKSMSEADKAPYVAK 91 (141)
Q Consensus 67 ~ei~k~l~~~Wk~Ls~~eK~~Y~~~ 91 (141)
..+.......+..|++++|..|..+
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 3556677889999999999988764
No 58
>smart00271 DnaJ DnaJ molecular chaperone homology domain.
Probab=21.60 E-value=1.6e+02 Score=16.91 Aligned_cols=33 Identities=21% Similarity=0.299 Sum_probs=19.5
Q ss_pred HHHHHHHHhCCCCCC-----HHHHHHHHHHHhcCCChH
Q 032419 51 EFREQYKKDHPKNKS-----VAAVGKAGGEKWKSMSEA 83 (141)
Q Consensus 51 e~r~~~~~~~p~~~~-----~~ei~k~l~~~Wk~Ls~~ 83 (141)
..+..++.-||+... ..++...|...|..|.+.
T Consensus 21 ay~~l~~~~HPD~~~~~~~~~~~~~~~l~~Ay~~L~~~ 58 (60)
T smart00271 21 AYRKLALKYHPDKNPGDKEEAEEKFKEINEAYEVLSDP 58 (60)
T ss_pred HHHHHHHHHCcCCCCCchHHHHHHHHHHHHHHHHHcCC
Confidence 344455666888333 345666777777766653
No 59
>cd08785 CARD_CARD9-like Caspase activation and recruitment domain of CARD9 and related proteins. Caspase activation and recruitment domain (CARD) found in CARD9, CARD14 (CARMA2), CARD10 (CARMA3), CARD11 (CARMA1) and BCL10. BCL10 (B-cell lymphoma 10), together with Malt1 (mucosa-associated lymphoid tissue-lymphoma-translocation gene 1), are integral components of the CBM signalosome. They associate with CARD9 to form M-CBM (CBM complex in myeloid immune cells), and with CARD11 to form L-CBM (CBM complex in lymphoid immune cells), which mediates activation of NF-kB and MAPK by ITAM-coupled receptors expressed on immune cells. BCL10/Malt1 also associates with CARD10, which is more widely expressed and is not restricted to hematopoietic cells, to play a role in GPCR-induced NF-kB activation. CARD14 has also been shown to associate with BCL10. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inf
Probab=21.59 E-value=72 Score=21.03 Aligned_cols=17 Identities=18% Similarity=0.444 Sum_probs=14.2
Q ss_pred CCCCCCcHHHHHHHHHH
Q 032419 37 KPKRPASAFFVFMEEFR 53 (141)
Q Consensus 37 ~PKrP~say~lF~~e~r 53 (141)
-|+|+..||..|+..-+
T Consensus 59 L~~rG~~Af~~F~~aL~ 75 (86)
T cd08785 59 LATRGKRGYVAFLESLE 75 (86)
T ss_pred HHhcCcchHHHHHHHHH
Confidence 57889999999998764
No 60
>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=21.50 E-value=2.5e+02 Score=23.75 Aligned_cols=44 Identities=7% Similarity=-0.073 Sum_probs=35.7
Q ss_pred HHHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHHHhCC
Q 032419 68 AVGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQA 111 (141)
Q Consensus 68 ei~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~~~~~ 111 (141)
+.++..-..|..|+..+|..+...+......+..++..-.....
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 34555667899999999999999999999999888887766544
No 61
>cd07122 ALDH_F20_ACDH Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like. Coenzyme A acylating aldehyde dehydrogenase (ACDH, EC=1.2.1.10), an NAD+ and CoA-dependent acetaldehyde dehydrogenase, 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=21.28 E-value=2.4e+02 Score=23.96 Aligned_cols=42 Identities=5% Similarity=0.126 Sum_probs=34.2
Q ss_pred HHHHHHHHhcCCChHhhHhHHHHHHHHHHHHHHHHHHHHHhC
Q 032419 69 VGKAGGEKWKSMSEADKAPYVAKAEKRKVEYEKDMKNYNRRQ 110 (141)
Q Consensus 69 i~k~l~~~Wk~Ls~~eK~~Y~~~a~~~k~~y~~e~~~y~~~~ 110 (141)
.++..-..|..+|..+|..+...+......+..++..+...-
T Consensus 7 ~A~~A~~~W~~~~~~eR~~~L~~~a~~l~~~~eela~~~~~E 48 (436)
T cd07122 7 RARKAQREFATFSQEQVDKIVEAVAWAAADAAEELAKMAVEE 48 (436)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555679999999999999999999999998888776543
No 62
>PRK14296 chaperone protein DnaJ; Provisional
Probab=21.23 E-value=1.8e+02 Score=24.19 Aligned_cols=39 Identities=18% Similarity=0.136 Sum_probs=27.3
Q ss_pred HHHHHHHHhCCCCCC----HHHHHHHHHHHhcCCChHhhHhHHH
Q 032419 51 EFREQYKKDHPKNKS----VAAVGKAGGEKWKSMSEADKAPYVA 90 (141)
Q Consensus 51 e~r~~~~~~~p~~~~----~~ei~k~l~~~Wk~Ls~~eK~~Y~~ 90 (141)
..|...+.-||+ .+ ..+..+.|.+.|..|++.+|..-.+
T Consensus 24 ayrkla~~~HPD-~n~~~~a~~~F~~i~~AyevLsD~~KR~~YD 66 (372)
T PRK14296 24 AYRKLAKQYHPD-LNKSPDAHDKMVEINEAADVLLDKDKRKQYD 66 (372)
T ss_pred HHHHHHHHHCcC-CCCCchHHHHHHHHHHHHHHhcCHHHhhhhh
Confidence 345555667888 43 4577889999999999877654333
No 63
>PRK14291 chaperone protein DnaJ; Provisional
Probab=20.88 E-value=1.9e+02 Score=24.08 Aligned_cols=39 Identities=21% Similarity=0.293 Sum_probs=27.7
Q ss_pred HHHHHHHHHhCCCCCC----HHHHHHHHHHHhcCCChHhhHhHH
Q 032419 50 EEFREQYKKDHPKNKS----VAAVGKAGGEKWKSMSEADKAPYV 89 (141)
Q Consensus 50 ~e~r~~~~~~~p~~~~----~~ei~k~l~~~Wk~Ls~~eK~~Y~ 89 (141)
+..|...+.-||+ .+ ..+..+.|.+.|..|++..|..-.
T Consensus 22 ~ayr~la~~~HPD-~~~~~~~~~~f~~i~~Ay~vLsd~~kR~~Y 64 (382)
T PRK14291 22 KAYRRLARKYHPD-FNKNPEAEEKFKEINEAYQVLSDPEKRKLY 64 (382)
T ss_pred HHHHHHHHHHCCC-CCCCccHHHHHHHHHHHHHHhcCHHHHHHH
Confidence 3455566677888 43 457788999999999987755433
No 64
>PF15076 DUF4543: Domain of unknown function (DUF4543)
Probab=20.01 E-value=1.1e+02 Score=19.41 Aligned_cols=21 Identities=14% Similarity=0.567 Sum_probs=17.2
Q ss_pred CCCCCCCCCCCCcHHHHHHHH
Q 032419 31 AAKDPNKPKRPASAFFVFMEE 51 (141)
Q Consensus 31 ~~~dp~~PKrP~say~lF~~e 51 (141)
+.+.|+.|--||.-||++++.
T Consensus 25 r~~K~GfpdepmrE~ml~l~~ 45 (75)
T PF15076_consen 25 RPRKPGFPDEPMREYMLHLQA 45 (75)
T ss_pred CCCCCCCCcchHHHHHHHHHH
Confidence 445678999999999999864
Done!