Query psy3437
Match_columns 132
No_of_seqs 131 out of 1129
Neff 5.5
Searched_HMMs 46136
Date Fri Aug 16 16:40:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3437.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3437hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0527|consensus 99.9 4.6E-27 1E-31 196.7 7.7 78 1-98 67-144 (331)
2 cd01389 MATA_HMG-box MATA_HMG- 99.9 5.2E-24 1.1E-28 143.1 8.8 71 1-91 6-76 (77)
3 cd01388 SOX-TCF_HMG-box SOX-TC 99.9 9E-22 1.9E-26 130.8 8.5 67 1-87 6-72 (72)
4 PF00505 HMG_box: HMG (high mo 99.7 1E-17 2.2E-22 108.7 4.2 65 1-85 5-69 (69)
5 smart00398 HMG high mobility g 99.7 6.6E-17 1.4E-21 104.2 7.5 65 1-85 6-70 (70)
6 KOG0528|consensus 99.7 2.4E-17 5.2E-22 142.9 3.2 71 1-91 330-400 (511)
7 PTZ00199 high mobility group p 99.7 1.8E-16 3.8E-21 111.1 6.3 65 1-85 27-93 (94)
8 cd01390 HMGB-UBF_HMG-box HMGB- 99.6 7.3E-16 1.6E-20 99.0 7.8 61 1-81 5-65 (66)
9 cd00084 HMG-box High Mobility 99.6 1E-15 2.2E-20 97.5 7.9 62 1-82 5-66 (66)
10 PF09011 HMG_box_2: HMG-box do 99.4 1.9E-13 4.1E-18 90.9 5.3 64 1-84 8-72 (73)
11 KOG0381|consensus 99.4 7.2E-13 1.6E-17 91.4 6.4 65 1-85 27-92 (96)
12 COG5648 NHP6B Chromatin-associ 99.2 1.5E-11 3.3E-16 97.6 6.2 65 1-85 75-139 (211)
13 KOG3248|consensus 99.2 1.8E-11 4E-16 103.3 5.7 65 1-85 196-260 (421)
14 KOG0526|consensus 98.9 2.3E-09 5E-14 94.8 6.1 64 1-89 540-603 (615)
15 KOG4715|consensus 98.5 1.2E-07 2.5E-12 80.0 4.4 69 1-89 69-137 (410)
16 KOG2746|consensus 98.4 1.7E-07 3.8E-12 84.6 4.2 60 1-80 186-247 (683)
17 PF14887 HMG_box_5: HMG (high 96.9 0.0035 7.5E-08 43.4 6.1 64 4-88 11-74 (85)
18 PF06382 DUF1074: Protein of u 96.4 0.0059 1.3E-07 47.9 4.9 48 2-73 84-131 (183)
19 PF08073 CHDNT: CHDNT (NUC034) 96.3 0.007 1.5E-07 39.1 4.0 38 2-39 14-51 (55)
20 COG5648 NHP6B Chromatin-associ 96.1 0.0044 9.4E-08 49.7 2.7 61 3-83 150-210 (211)
21 PF04690 YABBY: YABBY protein; 94.8 0.055 1.2E-06 42.1 4.8 37 1-37 126-162 (170)
22 PF04769 MAT_Alpha1: Mating-ty 94.8 0.032 6.9E-07 44.3 3.4 33 1-37 48-80 (201)
23 PF06244 DUF1014: Protein of u 87.1 1.2 2.6E-05 32.9 4.3 35 3-37 79-113 (122)
24 PF12881 NUT_N: NUT protein N 58.7 26 0.00056 30.0 5.4 52 3-74 231-282 (328)
25 TIGR03481 HpnM hopanoid biosyn 58.1 14 0.00031 28.8 3.6 28 58-85 81-109 (198)
26 KOG3223|consensus 52.8 19 0.00041 29.0 3.5 35 3-37 171-205 (221)
27 PRK15117 ABC transporter perip 52.5 22 0.00047 28.1 3.8 46 20-85 66-113 (211)
28 PF09164 VitD-bind_III: Vitami 41.5 79 0.0017 21.2 4.6 33 2-34 9-41 (68)
29 PF13412 HTH_24: Winged helix- 35.5 35 0.00076 19.9 2.0 23 15-37 11-33 (48)
30 PF06242 DUF1013: Protein of u 28.7 47 0.001 25.2 2.1 23 15-37 77-99 (140)
31 PF05494 Tol_Tol_Ttg2: Toluene 28.4 51 0.0011 24.5 2.3 46 20-85 36-83 (170)
32 PF14098 SSPI: Small, acid-sol 28.2 1.8E+02 0.004 19.2 4.7 57 12-69 4-60 (65)
33 cd08317 Death_ank Death domain 23.8 53 0.0011 21.9 1.5 21 20-40 3-23 (84)
34 PF06945 DUF1289: Protein of u 23.4 61 0.0013 20.0 1.6 19 54-72 29-47 (51)
35 TIGR03092 SASP_sspI small, aci 22.2 62 0.0013 21.5 1.5 19 50-68 40-58 (65)
36 KOG0528|consensus 21.7 43 0.00093 30.3 0.9 59 12-91 29-87 (511)
37 PF13542 HTH_Tnp_ISL3: Helix-t 20.5 1.1E+02 0.0024 17.9 2.3 30 9-38 14-44 (52)
No 1
>KOG0527|consensus
Probab=99.94 E-value=4.6e-27 Score=196.67 Aligned_cols=78 Identities=56% Similarity=0.979 Sum_probs=75.5
Q ss_pred CchHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhh
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSE 80 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~ 80 (132)
|||||||++..|++|.++||+|+|.||||.||..||. |+++||.||+++|+++|..|+++
T Consensus 67 MNAFMVWSq~~RRkma~qnP~mHNSEISK~LG~~WK~--------------------Lse~EKrPFi~EAeRLR~~Hmke 126 (331)
T KOG0527|consen 67 MNAFMVWSQGQRRKLAKQNPKMHNSEISKRLGAEWKL--------------------LSEEEKRPFVDEAERLRAQHMKE 126 (331)
T ss_pred cchhhhhhHHHHHHHHHhCcchhhHHHHHHHHHHHhh--------------------cCHhhhccHHHHHHHHHHHHHHh
Confidence 8999999999999999999999999999999999999 99999999999999999999999
Q ss_pred CCCCCCCCCccccccCCC
Q psy3437 81 HPNYKYQPRRRKCSKNLG 98 (132)
Q Consensus 81 ~p~Yky~p~k~k~~~~~~ 98 (132)
||||||+||||++.+...
T Consensus 127 hPdYKYRPRRKkk~~~~~ 144 (331)
T KOG0527|consen 127 YPDYKYRPRRKKKKRPKL 144 (331)
T ss_pred CCCccccccccccccccc
Confidence 999999999998877664
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=99.91 E-value=5.2e-24 Score=143.08 Aligned_cols=71 Identities=35% Similarity=0.636 Sum_probs=69.6
Q ss_pred CchHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhh
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSE 80 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~ 80 (132)
+|||||||++.|..|+.+||++++++|+++||.+|+. |++++|.+|.++|+.++++|+++
T Consensus 6 ~naf~lf~~~~r~~~~~~~p~~~~~eisk~~g~~Wk~--------------------ls~eeK~~y~~~A~~~k~~~~~~ 65 (77)
T cd01389 6 RNAFILYRQDKHAQLKTENPGLTNNEISRIIGRMWRS--------------------ESPEVKAYYKELAEEEKERHARE 65 (77)
T ss_pred CcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhh--------------------CCHHHHHHHHHHHHHHHHHHHHH
Confidence 6999999999999999999999999999999999999 99999999999999999999999
Q ss_pred CCCCCCCCCcc
Q psy3437 81 HPNYKYQPRRR 91 (132)
Q Consensus 81 ~p~Yky~p~k~ 91 (132)
||+|+|+|+++
T Consensus 66 ~p~Yky~p~~~ 76 (77)
T cd01389 66 YPDYKYTPRKS 76 (77)
T ss_pred CCCCcccCCCC
Confidence 99999999875
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=9e-22 Score=130.83 Aligned_cols=67 Identities=42% Similarity=0.824 Sum_probs=65.9
Q ss_pred CchHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhh
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSE 80 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~ 80 (132)
||||||||+++|..++.+||++++++|+++||..|+. ||+++|++|.++|.+++++|.++
T Consensus 6 ~naf~~F~~~~r~~~~~~~p~~~~~eisk~l~~~Wk~--------------------ls~~eK~~y~~~a~~~k~~y~~~ 65 (72)
T cd01388 6 MNAFMLFSKRHRRKVLQEYPLKENRAISKILGDRWKA--------------------LSNEEKQPYYEEAKKLKELHMKL 65 (72)
T ss_pred CcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHc--------------------CCHHHHHHHHHHHHHHHHHHHHH
Confidence 7999999999999999999999999999999999999 99999999999999999999999
Q ss_pred CCCCCCC
Q psy3437 81 HPNYKYQ 87 (132)
Q Consensus 81 ~p~Yky~ 87 (132)
||||+|.
T Consensus 66 ~p~y~y~ 72 (72)
T cd01388 66 YPDYKWR 72 (72)
T ss_pred CcCCCCC
Confidence 9999995
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=99.70 E-value=1e-17 Score=108.67 Aligned_cols=65 Identities=42% Similarity=0.719 Sum_probs=61.7
Q ss_pred CchHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhh
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSE 80 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~ 80 (132)
+|||||||.+.+..++.+||+++.++|+++||.+|+. ||+++|.+|.++|..+++.|.++
T Consensus 5 ~~af~lf~~~~~~~~k~~~p~~~~~~i~~~~~~~W~~--------------------l~~~eK~~y~~~a~~~~~~y~~~ 64 (69)
T PF00505_consen 5 PNAFMLFCKEKRAKLKEENPDLSNKEISKILAQMWKN--------------------LSEEEKAPYKEEAEEEKERYEKE 64 (69)
T ss_dssp --HHHHHHHHHHHHHHHHSTTSTHHHHHHHHHHHHHC--------------------SHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHhcccccccchhhHHHHHhc--------------------CCHHHHHHHHHHHHHHHHHHHHH
Confidence 5999999999999999999999999999999999999 99999999999999999999999
Q ss_pred CCCCC
Q psy3437 81 HPNYK 85 (132)
Q Consensus 81 ~p~Yk 85 (132)
+++|+
T Consensus 65 ~~~y~ 69 (69)
T PF00505_consen 65 MPEYK 69 (69)
T ss_dssp HHHHH
T ss_pred HHhcC
Confidence 99874
No 5
>smart00398 HMG high mobility group.
Probab=99.70 E-value=6.6e-17 Score=104.17 Aligned_cols=65 Identities=42% Similarity=0.727 Sum_probs=63.6
Q ss_pred CchHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhh
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSE 80 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~ 80 (132)
+||||||+++.|..+..+||++++++|++.||.+|+. |++++|.+|.++|+.+++.|..+
T Consensus 6 ~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~~~W~~--------------------l~~~ek~~y~~~a~~~~~~y~~~ 65 (70)
T smart00398 6 MSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKL--------------------LSEEEKAPYEEKAKKDKERYEEE 65 (70)
T ss_pred CcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHc--------------------CCHHHHHHHHHHHHHHHHHHHHH
Confidence 6999999999999999999999999999999999999 99999999999999999999999
Q ss_pred CCCCC
Q psy3437 81 HPNYK 85 (132)
Q Consensus 81 ~p~Yk 85 (132)
+++|+
T Consensus 66 ~~~y~ 70 (70)
T smart00398 66 MPEYK 70 (70)
T ss_pred HHhcC
Confidence 99985
No 6
>KOG0528|consensus
Probab=99.67 E-value=2.4e-17 Score=142.95 Aligned_cols=71 Identities=45% Similarity=0.986 Sum_probs=69.2
Q ss_pred CchHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhh
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSE 80 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~ 80 (132)
|||||+|.++.|+.|...+|+|++.+|||+||..||. |++.||+||+++-.++=+.|.+.
T Consensus 330 MNAFMVWAkDERRKILqA~PDMHNSnISKILGSRWKa--------------------MSN~eKQPYYEEQaRLSk~HlEk 389 (511)
T KOG0528|consen 330 MNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKA--------------------MSNTEKQPYYEEQARLSKLHLEK 389 (511)
T ss_pred cchhhcccchhhhhhhhcCccccccchhHHhcccccc--------------------cccccccchHHHHHHHHHhhhcc
Confidence 8999999999999999999999999999999999999 99999999999999999999999
Q ss_pred CCCCCCCCCcc
Q psy3437 81 HPNYKYQPRRR 91 (132)
Q Consensus 81 ~p~Yky~p~k~ 91 (132)
||+|+|+||.+
T Consensus 390 ~PdYrYkPRPK 400 (511)
T KOG0528|consen 390 YPDYRYKPRPK 400 (511)
T ss_pred CcccccCCCCC
Confidence 99999999844
No 7
>PTZ00199 high mobility group protein; Provisional
Probab=99.66 E-value=1.8e-16 Score=111.10 Aligned_cols=65 Identities=26% Similarity=0.531 Sum_probs=62.4
Q ss_pred CchHHHHHHHHHHHHHHhCCCCC--hHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHH
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLH--NAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHK 78 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~--~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~ 78 (132)
+|||||||+++|..|..+||+++ +++|+++||.+|+. ||+++|.+|.++|..++++|.
T Consensus 27 ~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~--------------------ls~eeK~~y~~~A~~dk~rY~ 86 (94)
T PTZ00199 27 LSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNK--------------------LSEEEKAPYEKKAQEDKVRYE 86 (94)
T ss_pred CcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHc--------------------CCHHHHHHHHHHHHHHHHHHH
Confidence 69999999999999999999986 89999999999999 999999999999999999999
Q ss_pred hhCCCCC
Q psy3437 79 SEHPNYK 85 (132)
Q Consensus 79 ~~~p~Yk 85 (132)
.++..|+
T Consensus 87 ~e~~~Y~ 93 (94)
T PTZ00199 87 KEKAEYA 93 (94)
T ss_pred HHHHHHh
Confidence 9998874
No 8
>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=99.65 E-value=7.3e-16 Score=98.97 Aligned_cols=61 Identities=31% Similarity=0.557 Sum_probs=59.3
Q ss_pred CchHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhh
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSE 80 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~ 80 (132)
+||||+|+++.|..+..+||++++++|++.||..|+. ||+++|.+|.+.|+.++++|..+
T Consensus 5 ~saf~~f~~~~r~~~~~~~p~~~~~~i~~~~~~~W~~--------------------ls~~eK~~y~~~a~~~~~~y~~e 64 (66)
T cd01390 5 LSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKWKE--------------------LSEEEKKKYEEKAEKDKERYEKE 64 (66)
T ss_pred CcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHh--------------------CCHHHHHHHHHHHHHHHHHHHHh
Confidence 6999999999999999999999999999999999999 99999999999999999999987
Q ss_pred C
Q psy3437 81 H 81 (132)
Q Consensus 81 ~ 81 (132)
+
T Consensus 65 ~ 65 (66)
T cd01390 65 M 65 (66)
T ss_pred h
Confidence 5
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=99.64 E-value=1e-15 Score=97.51 Aligned_cols=62 Identities=34% Similarity=0.639 Sum_probs=60.4
Q ss_pred CchHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhh
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSE 80 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~ 80 (132)
+||||+|+++.|..+..++|+++..+|++.+|..|+. |++++|.+|.++|+.+++.|..+
T Consensus 5 ~~af~~f~~~~~~~~~~~~~~~~~~~i~~~~~~~W~~--------------------l~~~~k~~y~~~a~~~~~~y~~~ 64 (66)
T cd00084 5 LSAYFLFSQEHRAEVKAENPGLSVGEISKILGEMWKS--------------------LSEEEKKKYEEKAEKDKERYEKE 64 (66)
T ss_pred CcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHh--------------------CCHHHHHHHHHHHHHHHHHHHHh
Confidence 6999999999999999999999999999999999999 99999999999999999999998
Q ss_pred CC
Q psy3437 81 HP 82 (132)
Q Consensus 81 ~p 82 (132)
+|
T Consensus 65 ~~ 66 (66)
T cd00084 65 MP 66 (66)
T ss_pred hC
Confidence 76
No 10
>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=99.43 E-value=1.9e-13 Score=90.87 Aligned_cols=64 Identities=20% Similarity=0.386 Sum_probs=57.7
Q ss_pred CchHHHHHHHHHHHHHHh-CCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHh
Q psy3437 1 MNAFMVWAQAARRTLANQ-YPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKS 79 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~-~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~ 79 (132)
+|||+||+.+++..+..+ .+.....++++.||..|+. ||+++|.+|.++|+.++++|..
T Consensus 8 ~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~--------------------Ls~~EK~~Y~~~A~~~k~~y~~ 67 (73)
T PF09011_consen 8 PSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKS--------------------LSEEEKEPYEERAKEDKERYER 67 (73)
T ss_dssp SSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHH--------------------S-HHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHh--------------------cCHHHHHHHHHHHHHHHHHHHH
Confidence 589999999999999999 7888999999999999999 9999999999999999999999
Q ss_pred hCCCC
Q psy3437 80 EHPNY 84 (132)
Q Consensus 80 ~~p~Y 84 (132)
++..|
T Consensus 68 e~~~~ 72 (73)
T PF09011_consen 68 EMKEW 72 (73)
T ss_dssp HHHHH
T ss_pred HHHhc
Confidence 87654
No 11
>KOG0381|consensus
Probab=99.40 E-value=7.2e-13 Score=91.38 Aligned_cols=65 Identities=31% Similarity=0.681 Sum_probs=61.9
Q ss_pred CchHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhh
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSE 80 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~ 80 (132)
++||++|+.+.|..++.+||+++..+|++.+|.+|+. |++++|.+|...|..++++|..+
T Consensus 27 ~sa~~~f~~~~~~~~k~~~p~~~~~~v~k~~g~~W~~--------------------l~~~~k~~y~~ka~~~k~~Y~~~ 86 (96)
T KOG0381|consen 27 LSAFFLFSSEQRSKIKAENPGLSVGEVAKALGEMWKN--------------------LAEEEKQPYEEKASKLKEKYEKE 86 (96)
T ss_pred CcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhc--------------------CCHHHHHHHHHHHHHHHHHHHHH
Confidence 5799999999999999999999999999999999999 99999999999999999999999
Q ss_pred CC-CCC
Q psy3437 81 HP-NYK 85 (132)
Q Consensus 81 ~p-~Yk 85 (132)
+. .|+
T Consensus 87 ~~~~~~ 92 (96)
T KOG0381|consen 87 LAGEYK 92 (96)
T ss_pred HHHHHh
Confidence 88 554
No 12
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=99.23 E-value=1.5e-11 Score=97.60 Aligned_cols=65 Identities=28% Similarity=0.569 Sum_probs=62.8
Q ss_pred CchHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhh
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSE 80 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~ 80 (132)
|+|||+|+...|..|..++|++.+++|++.+|+.|+. |++++|.||..+|..++++|..+
T Consensus 75 ~sayf~y~~~~R~ei~~~~p~l~~~e~~k~~~e~WK~--------------------Ltd~eke~y~k~~~~~~erYq~e 134 (211)
T COG5648 75 LSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKE--------------------LTDEEKEPYYKEANSDRERYQRE 134 (211)
T ss_pred hhHHHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHh--------------------ccHhhhhhHHHHHhhHHHHHHHH
Confidence 6899999999999999999999999999999999999 99999999999999999999998
Q ss_pred CCCCC
Q psy3437 81 HPNYK 85 (132)
Q Consensus 81 ~p~Yk 85 (132)
.-.|.
T Consensus 135 k~~y~ 139 (211)
T COG5648 135 KEEYN 139 (211)
T ss_pred HHhhh
Confidence 88775
No 13
>KOG3248|consensus
Probab=99.21 E-value=1.8e-11 Score=103.25 Aligned_cols=65 Identities=26% Similarity=0.507 Sum_probs=62.4
Q ss_pred CchHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhh
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSE 80 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~ 80 (132)
|||||||.+++|.+|.++.---...+|.++||..|-. ||-||...|+|+|.++++.|++.
T Consensus 196 LNAFmlyMKEmRa~vvaEctlKeSAaiNqiLGrRWH~--------------------LSrEEQAKYyElArKerqlH~ql 255 (421)
T KOG3248|consen 196 LNAFMLYMKEMRAKVVAECTLKESAAINQILGRRWHA--------------------LSREEQAKYYELARKERQLHMQL 255 (421)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhHHHhh--------------------hhHHHHHHHHHHHHHHHHHHHHh
Confidence 7999999999999999999877788999999999999 99999999999999999999999
Q ss_pred CCCCC
Q psy3437 81 HPNYK 85 (132)
Q Consensus 81 ~p~Yk 85 (132)
||+|-
T Consensus 256 YP~WS 260 (421)
T KOG3248|consen 256 YPGWS 260 (421)
T ss_pred cCCcc
Confidence 99985
No 14
>KOG0526|consensus
Probab=98.90 E-value=2.3e-09 Score=94.82 Aligned_cols=64 Identities=25% Similarity=0.508 Sum_probs=60.8
Q ss_pred CchHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhh
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSE 80 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~ 80 (132)
|+|||||.++.|..|+.+ +.+++||+|.+|++||. |+. |.+|.+.|+.+|++|..+
T Consensus 540 ~sa~m~w~~~~r~~ik~d--gi~~~dv~kk~g~~wk~--------------------ms~--k~~we~ka~~dk~ry~~e 595 (615)
T KOG0526|consen 540 TSAYMLWLNASRESIKED--GISVGDVAKKAGEKWKQ--------------------MSA--KEEWEDKAAVDKQRYEDE 595 (615)
T ss_pred hhHHHHHHHhhhhhHhhc--CchHHHHHHHHhHHHhh--------------------hcc--cchhhHHHHHHHHHHHHH
Confidence 689999999999999988 89999999999999999 999 999999999999999999
Q ss_pred CCCCCCCCC
Q psy3437 81 HPNYKYQPR 89 (132)
Q Consensus 81 ~p~Yky~p~ 89 (132)
|-+|+ .++
T Consensus 596 m~~yk-~g~ 603 (615)
T KOG0526|consen 596 MKEYK-NGQ 603 (615)
T ss_pred HHhhc-CCC
Confidence 99999 554
No 15
>KOG4715|consensus
Probab=98.50 E-value=1.2e-07 Score=80.05 Aligned_cols=69 Identities=20% Similarity=0.410 Sum_probs=65.3
Q ss_pred CchHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhh
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSE 80 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~ 80 (132)
|-+||-|++..+..|++.||++..-+|.|+||.+|+. |++++|+.|..+.+.+|..|.+.
T Consensus 69 l~pymrySrkvWd~VkA~nPe~kLWeiGK~Ig~mW~d--------------------Lpd~EK~ey~~EYeaEKieY~~s 128 (410)
T KOG4715|consen 69 LMPYMRYSRKVWDQVKASNPELKLWEIGKIIGGMWLD--------------------LPDEEKQEYLNEYEAEKIEYNES 128 (410)
T ss_pred cchhhHHhhhhhhhhhccCcchHHHHHHHHHHHHHhh--------------------CcchHHHHHHHHHHHHHHHHHHH
Confidence 4589999999999999999999999999999999999 99999999999999999999999
Q ss_pred CCCCCCCCC
Q psy3437 81 HPNYKYQPR 89 (132)
Q Consensus 81 ~p~Yky~p~ 89 (132)
|-.|.-.|-
T Consensus 129 mkayh~sp~ 137 (410)
T KOG4715|consen 129 MKAYHNSPA 137 (410)
T ss_pred HHHhhCCch
Confidence 999987663
No 16
>KOG2746|consensus
Probab=98.44 E-value=1.7e-07 Score=84.57 Aligned_cols=60 Identities=28% Similarity=0.510 Sum_probs=58.7
Q ss_pred CchHHHHHHHHH--HHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHH
Q psy3437 1 MNAFMVWAQAAR--RTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHK 78 (132)
Q Consensus 1 lNafilf~~~~r--~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~ 78 (132)
||+|+||++.+| ..+...||+..+.-|+++||+.|-+ |.+.||+.|.++|.+.|+.|-
T Consensus 186 Mnaf~ifskrhr~~g~vhq~~pn~DNrtIskiLgewWyt--------------------L~~~Ekq~yhdLa~Qvk~Ahf 245 (683)
T KOG2746|consen 186 MNAFHIFSKRHRGEGRVHQRHPNQDNRTISKILGEWWYT--------------------LGPNEKQKYHDLAFQVKEAHF 245 (683)
T ss_pred hHHHHHHHhhcCCccchhccCccccchhHHHHHhhhHhh--------------------hCchhhhhHHHHHHHHHHHHh
Confidence 899999999999 9999999999999999999999999 999999999999999999999
Q ss_pred hh
Q psy3437 79 SE 80 (132)
Q Consensus 79 ~~ 80 (132)
++
T Consensus 246 ka 247 (683)
T KOG2746|consen 246 KA 247 (683)
T ss_pred hh
Confidence 87
No 17
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A.
Probab=96.95 E-value=0.0035 Score=43.40 Aligned_cols=64 Identities=16% Similarity=0.326 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhhCCC
Q psy3437 4 FMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSEHPN 83 (132)
Q Consensus 4 filf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~~p~ 83 (132)
=-||-+.......+.++.-...++ +.++..|++ |+..+|-+|+..|..+.++|+.++-.
T Consensus 11 qe~Wqq~vi~dYla~~~~dr~K~~-kam~~~W~~--------------------me~Kekl~WIkKA~EdqKrYE~el~e 69 (85)
T PF14887_consen 11 QEIWQQSVIGDYLAKFRNDRKKAL-KAMEAQWSQ--------------------MEKKEKLKWIKKAAEDQKRYERELRE 69 (85)
T ss_dssp HHHHHHHHHHHHHHHTTSTHHHHH-HHHHHHHHT--------------------TGGGHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHhhHhHHHHH-HHHHHHHHH--------------------hhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 347888888888889998887775 599999999 99999999999999999999999999
Q ss_pred CCCCC
Q psy3437 84 YKYQP 88 (132)
Q Consensus 84 Yky~p 88 (132)
|+-.|
T Consensus 70 ~r~~~ 74 (85)
T PF14887_consen 70 MRSAP 74 (85)
T ss_dssp CS-CC
T ss_pred HhcCC
Confidence 97543
No 18
>PF06382 DUF1074: Protein of unknown function (DUF1074); InterPro: IPR024460 This family consists of several proteins which appear to be specific to Insecta. The function of this family is unknown.
Probab=96.44 E-value=0.0059 Score=47.91 Aligned_cols=48 Identities=23% Similarity=0.391 Sum_probs=43.0
Q ss_pred chHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHH
Q psy3437 2 NAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERL 73 (132)
Q Consensus 2 Nafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~ 73 (132)
||||=|..++|. .|.+|...|+....+..|.. |++++|..|..++...
T Consensus 84 naYLNFLReFRr----kh~~L~p~dlI~~AAraW~r--------------------LSe~eK~rYrr~~~~~ 131 (183)
T PF06382_consen 84 NAYLNFLREFRR----KHCGLSPQDLIQRAARAWCR--------------------LSEAEKNRYRRMAPSV 131 (183)
T ss_pred hHHHHHHHHHHH----HccCCCHHHHHHHHHHHHHh--------------------CCHHHHHHHHhhcchh
Confidence 789999888776 67899999999999999999 9999999999987654
No 19
>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=96.34 E-value=0.007 Score=39.10 Aligned_cols=38 Identities=21% Similarity=0.400 Sum_probs=34.6
Q ss_pred chHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhh
Q psy3437 2 NAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLK 39 (132)
Q Consensus 2 Nafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~ 39 (132)
+.|=+|.+..|+.|.+.||++..+.|..+++++||..+
T Consensus 14 t~yK~Fsq~vRP~l~~~NPk~~~sKl~~l~~AKwrEF~ 51 (55)
T PF08073_consen 14 TNYKAFSQHVRPLLAKANPKAPMSKLMMLLQAKWREFQ 51 (55)
T ss_pred HHHHHHHHHHHHHHHHHCCCCcHHHHHHHHHHHHHHHH
Confidence 45678999999999999999999999999999999843
No 20
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=96.12 E-value=0.0044 Score=49.69 Aligned_cols=61 Identities=23% Similarity=0.371 Sum_probs=55.7
Q ss_pred hHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhhCC
Q psy3437 3 AFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSEHP 82 (132)
Q Consensus 3 afilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~~p 82 (132)
+|+=+....|+.+...+|+....++.+++|..|+. |+++.|.+|++.+++.+..|..+||
T Consensus 150 ~~~e~~~~~r~~~~~~~~~~~~~e~~k~~~~~w~e--------------------l~~skK~~~~~~~Kk~k~~~~~~~~ 209 (211)
T COG5648 150 PFIENEPKIRPKVEGPSPDKALVEETKIISKAWSE--------------------LDESKKKKYIDKYKKLKEEYDSFYP 209 (211)
T ss_pred hhhhccHHhccccCCCCcchhhhHHhhhhhhhhhh--------------------hChhhhhHHHHHHHHHHHHHhhhcc
Confidence 46667778888888899999999999999999999 9999999999999999999999998
Q ss_pred C
Q psy3437 83 N 83 (132)
Q Consensus 83 ~ 83 (132)
.
T Consensus 210 ~ 210 (211)
T COG5648 210 E 210 (211)
T ss_pred c
Confidence 5
No 21
>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=94.84 E-value=0.055 Score=42.14 Aligned_cols=37 Identities=11% Similarity=0.249 Sum_probs=35.6
Q ss_pred CchHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhh
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKT 37 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~ 37 (132)
.+||-.|.++.-..|++.||+++..|.-+.++..|+.
T Consensus 126 psaYn~f~k~ei~rik~~~p~ishkeaFs~aAknW~h 162 (170)
T PF04690_consen 126 PSAYNRFMKEEIQRIKAENPDISHKEAFSAAAKNWAH 162 (170)
T ss_pred chhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhh
Confidence 3799999999999999999999999999999999998
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=94.77 E-value=0.032 Score=44.34 Aligned_cols=33 Identities=33% Similarity=0.600 Sum_probs=29.2
Q ss_pred CchHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhh
Q psy3437 1 MNAFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKT 37 (132)
Q Consensus 1 lNafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~ 37 (132)
+|+||+||.-+- ...|+..+.++|..|+..|..
T Consensus 48 lN~Fm~FRsyy~----~~~~~~~Qk~~S~~l~~lW~~ 80 (201)
T PF04769_consen 48 LNGFMAFRSYYS----PIFPPLPQKELSGILTKLWEK 80 (201)
T ss_pred hhHHHHHHHHHH----hhcCCcCHHHHHHHHHHHHhC
Confidence 699999977664 677889999999999999998
No 23
>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=87.11 E-value=1.2 Score=32.93 Aligned_cols=35 Identities=17% Similarity=0.350 Sum_probs=33.1
Q ss_pred hHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhh
Q psy3437 3 AFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKT 37 (132)
Q Consensus 3 afilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~ 37 (132)
||--|+-..-+.|+.+||+|..+++.-.|-..|..
T Consensus 79 Ay~afeE~~Lp~lK~E~PgLrlsQ~kq~l~K~w~K 113 (122)
T PF06244_consen 79 AYKAFEERRLPELKEENPGLRLSQYKQMLWKEWQK 113 (122)
T ss_pred HHHHHHHHHhHHHHhhCCCchHHHHHHHHHHHHhc
Confidence 68889999999999999999999999999999988
No 24
>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=58.69 E-value=26 Score=30.02 Aligned_cols=52 Identities=25% Similarity=0.259 Sum_probs=38.2
Q ss_pred hHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHH
Q psy3437 3 AFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLR 74 (132)
Q Consensus 3 afilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K 74 (132)
||..|.--.-+.|....|.|+..|-....=+.|.. .|+=||.-|+++|++--
T Consensus 231 AlSCFLIpvLrsLar~kPtMtlEeGl~ra~qEW~~--------------------~SnfdRmifyemaekFm 282 (328)
T PF12881_consen 231 ALSCFLIPVLRSLARLKPTMTLEEGLWRAVQEWQH--------------------TSNFDRMIFYEMAEKFM 282 (328)
T ss_pred hhhhhHHHHHHHHHhcCCCccHHHHHHHHHHHhhc--------------------cccccHHHHHHHHHHHc
Confidence 34444444456677778888888776666677777 99999999999998753
No 25
>TIGR03481 HpnM hopanoid biosynthesis associated membrane protein HpnM. The genomes containing members of this family share the machinery for the biosynthesis of hopanoid lipids. Furthermore, the genes of this family are usually located proximal to other components of this biological process. The proteins are members of the pfam05494 family of putative transporters known as "toluene tolerance protein Ttg2D", although it is unlikely that the members included here have anything to do with toluene per-se.
Probab=58.11 E-value=14 Score=28.80 Aligned_cols=28 Identities=21% Similarity=0.280 Sum_probs=22.8
Q ss_pred CChhhchhhHHHHHH-HHHHHHhhCCCCC
Q psy3437 58 LSDSDKKPFIEEAER-LRQIHKSEHPNYK 85 (132)
Q Consensus 58 ls~eeK~py~~~A~~-~K~~h~~~~p~Yk 85 (132)
+|+++|+.|.++-.. +...|...+-.|.
T Consensus 81 ~s~~Qr~~F~~~F~~~l~~tY~~~l~~y~ 109 (198)
T TIGR03481 81 LSPEQRRRFIGAFRELSIATYASQFKSYA 109 (198)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 999999999988666 7778877766664
No 26
>KOG3223|consensus
Probab=52.81 E-value=19 Score=29.03 Aligned_cols=35 Identities=23% Similarity=0.415 Sum_probs=32.5
Q ss_pred hHHHHHHHHHHHHHHhCCCCChHHHHHHHHHhhhh
Q psy3437 3 AFMVWAQAARRTLANQYPSLHNAELSKTLGVLWKT 37 (132)
Q Consensus 3 afilf~~~~r~~i~~~~P~l~~~eIsk~lg~~Wk~ 37 (132)
||--|-...-+.|+.+||+|..+++-.+|-..|+.
T Consensus 171 A~~afEe~~LPrLK~e~P~lrlsQ~Kqll~Kew~K 205 (221)
T KOG3223|consen 171 AFKAFEEARLPRLKKENPGLRLSQYKQLLKKEWQK 205 (221)
T ss_pred HHHHHHHhhchhhhhcCCCccHHHHHHHHHHHHhh
Confidence 67888888899999999999999999999999998
No 27
>PRK15117 ABC transporter periplasmic binding protein MlaC; Provisional
Probab=52.47 E-value=22 Score=28.06 Aligned_cols=46 Identities=17% Similarity=0.301 Sum_probs=33.0
Q ss_pred CCCChHHHHH-HHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHH-HHHHHHHHHhhCCCCC
Q psy3437 20 PSLHNAELSK-TLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEE-AERLRQIHKSEHPNYK 85 (132)
Q Consensus 20 P~l~~~eIsk-~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~-A~~~K~~h~~~~p~Yk 85 (132)
|...+..+++ .||.-|+. +|+++|..|.++ -.-+-.-|....-+|.
T Consensus 66 p~~Df~~~s~~vLG~~wr~--------------------as~eQr~~F~~~F~~~Lv~tYa~~l~~y~ 113 (211)
T PRK15117 66 PYVQVKYAGALVLGRYYKD--------------------ATPAQREAYFAAFREYLKQAYGQALAMYH 113 (211)
T ss_pred ccCCHHHHHHHHhhhhhhh--------------------CCHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 4445555654 56667777 999999999976 5556677888777775
No 28
>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=41.52 E-value=79 Score=21.19 Aligned_cols=33 Identities=18% Similarity=0.279 Sum_probs=25.5
Q ss_pred chHHHHHHHHHHHHHHhCCCCChHHHHHHHHHh
Q psy3437 2 NAFMVWAQAARRTLANQYPSLHNAELSKTLGVL 34 (132)
Q Consensus 2 Nafilf~~~~r~~i~~~~P~l~~~eIsk~lg~~ 34 (132)
|.|.=|-+.....++...|+++.++|...+...
T Consensus 9 ~tFtEyKKrL~e~l~~k~P~at~~~l~~lve~R 41 (68)
T PF09164_consen 9 NTFTEYKKRLAERLRAKLPDATPTELKELVEKR 41 (68)
T ss_dssp S-HHHHHHHHHHHHHHH-TTS-HHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Confidence 568888899999999999999999998777653
No 29
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=35.55 E-value=35 Score=19.90 Aligned_cols=23 Identities=26% Similarity=0.468 Sum_probs=17.9
Q ss_pred HHHhCCCCChHHHHHHHHHhhhh
Q psy3437 15 LANQYPSLHNAELSKTLGVLWKT 37 (132)
Q Consensus 15 i~~~~P~l~~~eIsk~lg~~Wk~ 37 (132)
+..++|.+++++|++.+|--+.+
T Consensus 11 ~l~~~~~~t~~ela~~~~is~~t 33 (48)
T PF13412_consen 11 YLRENPRITQKELAEKLGISRST 33 (48)
T ss_dssp HHHHCTTS-HHHHHHHHTS-HHH
T ss_pred HHHHcCCCCHHHHHHHhCCCHHH
Confidence 34579999999999999988877
No 30
>PF06242 DUF1013: Protein of unknown function (DUF1013); InterPro: IPR010421 This is a family of uncharacterised proteins found in Proteobacteria.
Probab=28.73 E-value=47 Score=25.21 Aligned_cols=23 Identities=30% Similarity=0.488 Sum_probs=19.1
Q ss_pred HHHhCCCCChHHHHHHHHHhhhh
Q psy3437 15 LANQYPSLHNAELSKTLGVLWKT 37 (132)
Q Consensus 15 i~~~~P~l~~~eIsk~lg~~Wk~ 37 (132)
|.+.||.++..+|+|.+|.-=.+
T Consensus 77 lvk~hPel~DaQI~kLiGTTK~T 99 (140)
T PF06242_consen 77 LVKNHPELSDAQIAKLIGTTKPT 99 (140)
T ss_pred HHhcCCcccHHHHHHHhcCcHHH
Confidence 66789999999999999965433
No 31
>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=28.35 E-value=51 Score=24.46 Aligned_cols=46 Identities=20% Similarity=0.458 Sum_probs=30.4
Q ss_pred CCCChHHHHH-HHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHH-HHHHHHHHHhhCCCCC
Q psy3437 20 PSLHNAELSK-TLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEE-AERLRQIHKSEHPNYK 85 (132)
Q Consensus 20 P~l~~~eIsk-~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~-A~~~K~~h~~~~p~Yk 85 (132)
|...+..|++ .||.-|+. +|++++..|.+. -+-+...|......|.
T Consensus 36 ~~~D~~~~ar~~LG~~w~~--------------------~s~~q~~~F~~~f~~~l~~~Y~~~l~~y~ 83 (170)
T PF05494_consen 36 PYFDFERMARRVLGRYWRK--------------------ASPAQRQRFVEAFKQLLVRTYAKRLDEYS 83 (170)
T ss_dssp GGB-HHHHHHHHHGGGTTT--------------------S-HHHHHHHHHHHHHHHHHHHHHHHHT-S
T ss_pred HhCCHHHHHHHHHHHhHhh--------------------CCHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 4455666654 45667777 999999999977 4455667777777765
No 32
>PF14098 SSPI: Small, acid-soluble spore protein I
Probab=28.15 E-value=1.8e+02 Score=19.24 Aligned_cols=57 Identities=16% Similarity=0.223 Sum_probs=31.6
Q ss_pred HHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHH
Q psy3437 12 RRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEE 69 (132)
Q Consensus 12 r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~ 69 (132)
|.+|...--+-+..+|-..+-..=.+ .+|.-.|-+==-|..+|+++++++|.-....
T Consensus 4 R~AI~~nv~g~s~~el~~~I~daI~s-gEE~~LPGLGVlFE~~W~~~~~~ek~~m~~~ 60 (65)
T PF14098_consen 4 RQAIIHNVKGSSKEELKDTIEDAIQS-GEEKALPGLGVLFEVIWKNSDESEKQEMVNT 60 (65)
T ss_pred HHHHHHHccCCCHHHHHHHHHHHHhc-cchhcCCchHHHHHHHHHhCCHHHHHHHHHH
Confidence 55555544455566665555444332 1222233333345568888999999876643
No 33
>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=23.81 E-value=53 Score=21.86 Aligned_cols=21 Identities=29% Similarity=0.502 Sum_probs=17.7
Q ss_pred CCCChHHHHHHHHHhhhhhhh
Q psy3437 20 PSLHNAELSKTLGVLWKTLKV 40 (132)
Q Consensus 20 P~l~~~eIsk~lg~~Wk~~~~ 40 (132)
|++....|++.||..|+..-.
T Consensus 3 ~~~~l~~ia~~lG~dW~~LAr 23 (84)
T cd08317 3 ADIRLADISNLLGSDWPQLAR 23 (84)
T ss_pred ccchHHHHHHHHhhHHHHHHH
Confidence 577889999999999999433
No 34
>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=23.37 E-value=61 Score=19.96 Aligned_cols=19 Identities=11% Similarity=0.452 Sum_probs=12.9
Q ss_pred hcccCChhhchhhHHHHHH
Q psy3437 54 TYTKLSDSDKKPFIEEAER 72 (132)
Q Consensus 54 ~w~~ls~eeK~py~~~A~~ 72 (132)
.|+.|++++|.........
T Consensus 29 ~W~~~s~~er~~i~~~l~~ 47 (51)
T PF06945_consen 29 DWKSMSDDERRAILARLRA 47 (51)
T ss_pred HHhhCCHHHHHHHHHHHHH
Confidence 4555999998776655443
No 35
>TIGR03092 SASP_sspI small, acid-soluble spore protein I. This protein family is restricted to a subset of endospore-forming bacteria such as Bacillus subtilis, all of which are in the Firmicutes (low-GC Gram-positive) lineage. It is a minor SASP (small, acid-soluble spore protein) designated SspI. The gene in Bacillus subtilis previously was designated ysfA.
Probab=22.23 E-value=62 Score=21.54 Aligned_cols=19 Identities=21% Similarity=0.504 Sum_probs=13.8
Q ss_pred chhhhcccCChhhchhhHH
Q psy3437 50 PFEDTYTKLSDSDKKPFIE 68 (132)
Q Consensus 50 ~~~~~w~~ls~eeK~py~~ 68 (132)
-|..+|+++++++|.-...
T Consensus 40 lFE~~W~~~~~~ek~~m~~ 58 (65)
T TIGR03092 40 LFEAIWKHANEQEKDEMLE 58 (65)
T ss_pred HHHHHHHhcCHHHHHHHHH
Confidence 3445777799999876654
No 36
>KOG0528|consensus
Probab=21.73 E-value=43 Score=30.31 Aligned_cols=59 Identities=17% Similarity=0.213 Sum_probs=48.7
Q ss_pred HHHHHHhCCCCChHHHHHHHHHhhhhhhhhhccccCCcchhhhcccCChhhchhhHHHHHHHHHHHHhhCCCCCCCCCcc
Q psy3437 12 RRTLANQYPSLHNAELSKTLGVLWKTLKVETHYHHVMSPFEDTYTKLSDSDKKPFIEEAERLRQIHKSEHPNYKYQPRRR 91 (132)
Q Consensus 12 r~~i~~~~P~l~~~eIsk~lg~~Wk~~~~~~~~~~~~~~~~~~w~~ls~eeK~py~~~A~~~K~~h~~~~p~Yky~p~k~ 91 (132)
+.....+.|.+....|+ ..++.|.. .+...+..+..........|....+.|.+.+..+
T Consensus 29 ~~~~~~e~~~s~~q~i~-~~~ql~~~--------------------~s~q~~~a~~~~s~~~~q~h~~~q~~~~i~~~~~ 87 (511)
T KOG0528|consen 29 LAEKELELPTSIHQLIS-LRGQLLAN--------------------HSEQKKLAASDSSAQEQQMHLAEQQQEQIAPQQQ 87 (511)
T ss_pred hhhhhhccCCCcceeee-cchhhccc--------------------ccccchhhhhhhhHHHHHHHHHHhHHHhhhHHHH
Confidence 34445577777777777 88888888 9999999999999999999999999999988644
No 37
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=20.46 E-value=1.1e+02 Score=17.86 Aligned_cols=30 Identities=17% Similarity=0.365 Sum_probs=21.7
Q ss_pred HHHHHHHHHhCCCC-ChHHHHHHHHHhhhhh
Q psy3437 9 QAARRTLANQYPSL-HNAELSKTLGVLWKTL 38 (132)
Q Consensus 9 ~~~r~~i~~~~P~l-~~~eIsk~lg~~Wk~~ 38 (132)
......|....-.. ++++|++.+|.-|.++
T Consensus 14 ~~~~~~i~~~~~~~~s~~~vA~~~~vs~~TV 44 (52)
T PF13542_consen 14 KRLEQYILKLLRESRSFKDVARELGVSWSTV 44 (52)
T ss_pred HHHHHHHHHHHhhcCCHHHHHHHHCCCHHHH
Confidence 33444555555555 8999999999999983
Done!