Query psy7387
Match_columns 196
No_of_seqs 49 out of 51
Neff 3.4
Searched_HMMs 46136
Date Fri Aug 16 16:54:49 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7387.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7387hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3633|consensus 100.0 4.4E-67 9.6E-72 443.3 18.0 170 21-190 38-208 (219)
2 smart00264 BAG BAG domains, pr 98.4 1.8E-07 3.8E-12 68.8 1.8 71 111-183 1-71 (79)
3 PF06005 DUF904: Protein of un 78.3 13 0.00029 27.3 6.8 38 29-66 15-52 (72)
4 PF02179 BAG: BAG domain; Int 77.4 0.31 6.7E-06 35.2 -2.0 70 114-185 1-74 (76)
5 PF06005 DUF904: Protein of un 72.2 37 0.00079 25.0 9.7 50 31-90 3-52 (72)
6 PF10146 zf-C4H2: Zinc finger- 67.3 13 0.00029 32.7 5.4 59 31-91 24-88 (230)
7 PF04124 Dor1: Dor1-like famil 63.6 95 0.0021 27.9 10.2 114 26-144 61-186 (338)
8 PF10018 Med4: Vitamin-D-recep 63.2 40 0.00086 28.1 7.3 61 35-95 25-99 (188)
9 PRK14474 F0F1 ATP synthase sub 55.5 1.4E+02 0.0031 26.1 11.8 111 33-180 91-203 (250)
10 PF13851 GAS: Growth-arrest sp 54.2 71 0.0015 27.2 7.4 110 25-149 55-178 (201)
11 PF09849 DUF2076: Uncharacteri 45.4 30 0.00066 30.9 4.0 22 107-128 52-73 (247)
12 PF08946 Osmo_CC: Osmosensory 44.2 47 0.001 23.2 3.9 35 26-60 6-40 (46)
13 KOG1029|consensus 42.5 4.7E+02 0.01 28.2 13.1 151 28-190 380-561 (1118)
14 PF08651 DASH_Duo1: DASH compl 40.6 54 0.0012 24.4 4.1 35 109-147 7-41 (78)
15 PRK14126 cell division protein 39.0 1.1E+02 0.0025 22.8 5.6 63 101-185 18-83 (85)
16 cd04786 HTH_MerR-like_sg7 Heli 38.9 1.3E+02 0.0029 23.8 6.4 39 32-70 78-116 (131)
17 PF14148 YhdB: YhdB-like prote 38.5 30 0.00065 26.4 2.4 17 171-187 52-68 (77)
18 PF15237 PTRF_SDPR: PTRF/SDPR 35.7 36 0.00078 30.9 2.9 80 30-112 7-86 (246)
19 PF12709 Kinetocho_Slk19: Cent 32.4 1E+02 0.0022 23.9 4.5 35 29-63 53-87 (87)
20 PF00645 zf-PARP: Poly(ADP-rib 31.6 23 0.00049 25.3 0.8 13 165-177 70-82 (82)
21 PF07505 Gp37_Gp68: Phage prot 30.2 26 0.00057 31.4 1.1 94 83-181 27-162 (261)
22 PF05413 Peptidase_C34: Putati 27.5 95 0.0021 24.3 3.7 43 117-173 11-53 (92)
23 PF13117 Cag12: Cag pathogenic 27.2 27 0.00059 27.9 0.7 17 139-155 5-21 (113)
24 cd01055 Nonheme_Ferritin nonhe 26.7 2.4E+02 0.0051 21.9 5.9 106 68-187 38-143 (156)
25 PF14712 Snapin_Pallidin: Snap 26.6 2.4E+02 0.0053 20.3 5.6 30 37-66 12-41 (92)
26 PF04536 TPM: TLP18.3, Psb32 a 26.2 1E+02 0.0022 22.4 3.6 33 74-107 2-34 (119)
27 KOG0249|consensus 26.2 1.4E+02 0.003 31.5 5.5 70 24-95 215-284 (916)
28 PF05164 ZapA: Cell division p 25.5 1.3E+02 0.0028 21.2 3.9 28 102-129 12-40 (89)
29 COG1794 RacX Aspartate racemas 24.7 86 0.0019 28.2 3.4 64 83-165 132-197 (230)
30 PF03915 AIP3: Actin interacti 24.7 79 0.0017 30.4 3.4 27 24-50 212-238 (424)
31 PF05164 ZapA: Cell division p 24.5 35 0.00077 24.1 0.8 44 23-66 16-59 (89)
32 PF15456 Uds1: Up-regulated Du 24.5 3.8E+02 0.0081 21.6 7.4 66 35-126 32-97 (124)
33 PF10212 TTKRSYEDQ: Predicted 24.0 52 0.0011 32.6 2.1 47 113-160 3-49 (518)
34 PRK15422 septal ring assembly 23.7 1.5E+02 0.0033 22.7 4.1 20 31-50 3-22 (79)
35 PRK14126 cell division protein 23.2 1.2E+02 0.0025 22.7 3.4 55 11-65 10-64 (85)
36 PF04340 DUF484: Protein of un 23.1 1.5E+02 0.0032 25.1 4.4 74 32-108 40-123 (225)
37 PF07106 TBPIP: Tat binding pr 22.3 2.6E+02 0.0055 22.6 5.5 58 34-91 74-134 (169)
38 PRK15278 type III secretion pr 22.2 1.1E+02 0.0024 27.5 3.6 46 100-147 72-125 (261)
39 PF05008 V-SNARE: Vesicle tran 21.6 2.7E+02 0.0058 19.5 4.8 36 109-144 31-66 (79)
40 PF00406 ADK: Adenylate kinase 21.4 75 0.0016 24.4 2.1 74 82-183 61-139 (151)
41 PF10224 DUF2205: Predicted co 20.5 3E+02 0.0065 20.8 5.1 41 32-72 30-70 (80)
42 PF02346 Vac_Fusion: Chordopox 20.4 1.4E+02 0.0029 21.5 3.1 23 32-54 29-51 (57)
43 PRK00888 ftsB cell division pr 20.1 1.3E+02 0.0028 23.3 3.2 36 33-68 28-63 (105)
No 1
>KOG3633|consensus
Probab=100.00 E-value=4.4e-67 Score=443.29 Aligned_cols=170 Identities=33% Similarity=0.567 Sum_probs=164.9
Q ss_pred CCCCCchhhHhhhHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhccchhhccCCcchHHHHHHHHHHHhhccceeEEEE
Q psy7387 21 ENDLSLKDHLLGQLDQVEAHVEELRKMASQLENEKDQILTTIHTLKNMDSLNDIGDNDKDDILRYLDRISLRCTTIDVCV 100 (196)
Q Consensus 21 ~~~~~~~~rll~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~~s~~l~~l~e~erEei~~~a~RL~~R~~TVeV~V 100 (196)
+.+++.|+||+.+||+||.|||+|||+|+.||+|||+||+||+.|++|++|++|+|+|||||.+|++||++||.||+|+|
T Consensus 38 dr~~~~s~r~v~~LD~lelrVE~LRk~A~~le~eKe~lL~s~~~I~~~~~M~~~se~eREEi~l~~~Rl~~Rt~TVev~V 117 (219)
T KOG3633|consen 38 DRPFNASERFVTILDSLELRVEKLRKDALNLEEEKEYLLMSMDLIKSNEMMQNMSEAEREEIILYLQRLSSRTATVEVRV 117 (219)
T ss_pred cCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHhhhhHHHHHHHHHHHhcccceEEEEE
Confidence 36788899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eccCChHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHhccCCCC-CCCCcchhhhHHHhccchhhhHHHHHHHHHH
Q psy7387 101 HTLRSDDQVESLHQVNCLIDNLIIGMRETPEQTQTKCLSYVAACSSSS-TVGNGDKTFEHAVLGCALDDQKRIRQRLNGL 179 (196)
Q Consensus 101 ~T~Rn~~QEeAL~qvn~lID~lv~~~~~D~~~ar~~c~~ylnACss~~-~~gp~DqkFqs~vIgCtlDDQKrIKkRLe~L 179 (196)
+|+||++|++||.|+|.|||+++++++.+++.||.++++|++||||+. |.||+||||++||||||+||||+||||||+|
T Consensus 118 eT~Rn~~Q~~sL~~at~lIDev~~m~~~~ig~ak~~l~tl~~aCSse~~p~GpvdqkF~si~igCaldDQK~IKrRLe~L 197 (219)
T KOG3633|consen 118 ETVRNNSQEDSLSQATVLIDEVIKMGDPVIGRAKCQLYTLNAACSSEMDPSGPVDQKFESILIGCALDDQKNIKRRLEAL 197 (219)
T ss_pred eccCChHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhccccCCCCchhHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999998 4599999999999999999999999999999
Q ss_pred HHHHHHHhHhh
Q psy7387 180 LDYMTKEKWKK 190 (196)
Q Consensus 180 l~yi~k~~~~k 190 (196)
|.||++++++.
T Consensus 198 m~~ien~~~eh 208 (219)
T KOG3633|consen 198 MAYIENQTVEH 208 (219)
T ss_pred HHHHHHHHHhh
Confidence 99999977764
No 2
>smart00264 BAG BAG domains, present in regulator of Hsp70 proteins. BAG domains, present in Bcl-2-associated athanogene 1 and silencer of death domains
Probab=98.35 E-value=1.8e-07 Score=68.83 Aligned_cols=71 Identities=20% Similarity=0.196 Sum_probs=67.2
Q ss_pred HHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHhccCCCCCCCCcchhhhHHHhccchhhhHHHHHHHHHHHHHH
Q psy7387 111 SLHQVNCLIDNLIIGMRETPEQTQTKCLSYVAACSSSSTVGNGDKTFEHAVLGCALDDQKRIRQRLNGLLDYM 183 (196)
Q Consensus 111 AL~qvn~lID~lv~~~~~D~~~ar~~c~~ylnACss~~~~gp~DqkFqs~vIgCtlDDQKrIKkRLe~Ll~yi 183 (196)
++.+||.++|++..++.++...+..+-..|..+|.++...++..+.|...+.|| +|+|.+||++...+..+
T Consensus 1 ~i~~v~~~~~ev~~~l~~~v~~~~~~~~~~~~~~l~E~l~~~LlkLD~i~~~g~--~~~R~~RK~~v~~iq~~ 71 (79)
T smart00264 1 SIKKINRVLDEVVKKIEKEVQVADGKKDDKEYLRLSEELMKLLLKLDSVDVEGC--PDIREARKRLVRLIQNL 71 (79)
T ss_pred ChHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHHHHHcCcCcCCc--HHHHHHHHHHHHHHHHH
Confidence 578999999999999999999999999999999999999999999999999999 89999999998888777
No 3
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=78.34 E-value=13 Score=27.33 Aligned_cols=38 Identities=18% Similarity=0.344 Sum_probs=21.7
Q ss_pred hHhhhHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhc
Q psy7387 29 HLLGQLDQVEAHVEELRKMASQLENEKDQILTTIHTLK 66 (196)
Q Consensus 29 rll~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~ 66 (196)
.++++...|.+.|+.|++....|.++++.|-.-...++
T Consensus 15 ~aveti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~ 52 (72)
T PF06005_consen 15 QAVETIALLQMENEELKEKNNELKEENEELKEENEQLK 52 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 34555555556666666666666655555555555444
No 4
>PF02179 BAG: BAG domain; InterPro: IPR003103 BAG domains are present in Bcl-2-associated athanogene 1 and silencer of death domains. The BAG proteins are modulators of chaperone activity, they bind to HSP70/HSC70 proteins and promote substrate release. The proteins have anti-apoptotic activity and increase the anti-cell death function of BCL-2 induced by various stimuli. BAG-1 binds to the serine/threonine kinase Raf-1 or Hsc70/Hsp70 in a mutually exclusive interaction. BAG-1 promotes cell growth by binding to and stimulating Raf-1 activity. The binding of Hsp70 to BAG-1 diminishes Raf-1 signalling and inhibits subsequent events, such as DNA synthesis, as well as arrests the cell cycle. BAG-1 has been suggested to function as a molecular switch that encourages cells to proliferate in normal conditions but become quiescent under a stressful environment []. BAG-family proteins contain a single BAG domain, except for human BAG-5 which has four BAG repeats. The BAG domain is a conserved region located at the C terminus of the BAG-family proteins that binds the ATPase domain of Hsc70/Hsp70. The BAG domain is evolutionarily conserved, and BAG domain containing proteins have been described and/or proven in a variety of organisms including Mus musculus (Mouse), Xenopus spp., Drosophila spp., Bombyx mori (Silk moth), Caenorhabditis elegans, Saccharomyces cerevisiae (Baker's yeast), Schizosaccharomyces pombe (Fission yeast), and Arabidopsis thaliana (Mouse-ear cress). The BAG domain has 110-124 amino acids and is comprised of three anti-parallel alpha-helices, each approximately 30-40 amino acids in length. The first and second helices interact with the serine/threonine kinase Raf-1 and the second and third helices are the sites of the BAG domain interaction with the ATPase domain of Hsc70/Hsp70. Binding of the BAG domain to the ATPase domain is mediated by both electrostatic and hydrophobic interactions in BAG-1 and is energy requiring.; GO: 0051087 chaperone binding; PDB: 1M7K_A 1M62_A 1T7S_A 1UGO_A 1I6Z_A 3A8Y_C 1UK5_A 3FZM_B 3FZL_B 3M3Z_B ....
Probab=77.37 E-value=0.31 Score=35.15 Aligned_cols=70 Identities=17% Similarity=0.136 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHhhcCHHHHHHHHHH-HHhccCCCCCCCCcchhhhHH-Hhc--cchhhhHHHHHHHHHHHHHHHH
Q psy7387 114 QVNCLIDNLIIGMRETPEQTQTKCLS-YVAACSSSSTVGNGDKTFEHA-VLG--CALDDQKRIRQRLNGLLDYMTK 185 (196)
Q Consensus 114 qvn~lID~lv~~~~~D~~~ar~~c~~-ylnACss~~~~gp~DqkFqs~-vIg--CtlDDQKrIKkRLe~Ll~yi~k 185 (196)
+++.+++++-..+............. .+.+|+ +...+. --++.++ ..| |.-+..|.+-+|+|++++++++
T Consensus 1 ~I~~i~~~v~~~l~~~v~~~~~~~~~~~~~~l~-E~L~~~-LlkLD~I~~~g~~~iR~~RK~~v~~iq~~l~~lD~ 74 (76)
T PF02179_consen 1 KIEKIIDEVEKELQPEVEQFDGKKDEKEYLRLS-EMLMQL-LLKLDSIETEGNPEIREKRKQAVKRIQQLLDKLDS 74 (76)
T ss_dssp HHHHHHHHHHHCHHHHHHHHHHHHCCHHHHHHH-HHHHHH-HHHHHTCECSSSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHH-HHHHHH-HHHhcCcccCCCHHHHHHHHHHHHHHHHHHHHHHc
Confidence 34555555555555554444222222 222222 322222 3444444 444 8889999999999999999965
No 5
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=72.16 E-value=37 Score=25.02 Aligned_cols=50 Identities=16% Similarity=0.338 Sum_probs=39.4
Q ss_pred hhhHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhccchhhccCCcchHHHHHHHHHHHh
Q psy7387 31 LGQLDQVEAHVEELRKMASQLENEKDQILTTIHTLKNMDSLNDIGDNDKDDILRYLDRIS 90 (196)
Q Consensus 31 l~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~~s~~l~~l~e~erEei~~~a~RL~ 90 (196)
++.|++||.+|.++=+.-..|+.|-+.|-.--..+. .+++++..-.++|-
T Consensus 3 ~E~l~~LE~ki~~aveti~~Lq~e~eeLke~n~~L~----------~e~~~L~~en~~L~ 52 (72)
T PF06005_consen 3 LELLEQLEEKIQQAVETIALLQMENEELKEKNNELK----------EENEELKEENEQLK 52 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH----------HHHHHHHHHHHHHH
Confidence 688999999999998888888888887776555544 66777777777776
No 6
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=67.30 E-value=13 Score=32.65 Aligned_cols=59 Identities=17% Similarity=0.339 Sum_probs=45.9
Q ss_pred hhhHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhccchhhccC------CcchHHHHHHHHHHHhh
Q psy7387 31 LGQLDQVEAHVEELRKMASQLENEKDQILTTIHTLKNMDSLNDI------GDNDKDDILRYLDRISL 91 (196)
Q Consensus 31 l~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~~s~~l~~l------~e~erEei~~~a~RL~~ 91 (196)
++.+++-+..++.+++....|.+||.+.++-|..|.. ++..| ...||+.+...|.|+.+
T Consensus 24 ~~~~e~ee~~L~e~~kE~~~L~~Er~~h~eeLrqI~~--DIn~lE~iIkqa~~er~~~~~~i~r~~e 88 (230)
T PF10146_consen 24 VESLENEEKCLEEYRKEMEELLQERMAHVEELRQINQ--DINTLENIIKQAESERNKRQEKIQRLYE 88 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678889999999999999999999999999988864 22222 35577777777777654
No 7
>PF04124 Dor1: Dor1-like family ; InterPro: IPR007255 Dor1 is involved in vesicle targeting to the yeast Golgi apparatus and complexes with a number of other trafficking proteins, which include Sec34 and Sec35 [].
Probab=63.63 E-value=95 Score=27.95 Aligned_cols=114 Identities=13% Similarity=0.215 Sum_probs=78.8
Q ss_pred chhhHhhhHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhccchhh-----------ccCCcchHHHHHHHHHHHhhccc
Q psy7387 26 LKDHLLGQLDQVEAHVEELRKMASQLENEKDQILTTIHTLKNMDSL-----------NDIGDNDKDDILRYLDRISLRCT 94 (196)
Q Consensus 26 ~~~rll~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~~s~~l-----------~~l~e~erEei~~~a~RL~~R~~ 94 (196)
.-+.|...|.+|....+.|...|...-++|.....++.+...=-++ ++=.-.|--|+..|+.||..|-.
T Consensus 61 ~l~~L~~~l~~L~~~~~~f~~~~~~~~~~r~~~~~~l~~~~~l~diLElP~Lm~~ci~~g~y~eALel~~~~~~L~~~~~ 140 (338)
T PF04124_consen 61 SLDSLLDSLPELDEACQRFSSKAQKISEERKKASLLLENHDRLLDILELPQLMDTCIRNGNYSEALELSAHVRRLQSRFP 140 (338)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhcccHhhHHHHHHHHHHHHHhcc
Confidence 3456777778888888888888888888888777666655442222 22234577789999999999998
Q ss_pred eeEEEEeccCChHHHHHHHHHHHHHHHHHHHhhcCHHHHH-HHHHHHHhcc
Q psy7387 95 TIDVCVHTLRSDDQVESLHQVNCLIDNLIIGMRETPEQTQ-TKCLSYVAAC 144 (196)
Q Consensus 95 TVeV~V~T~Rn~~QEeAL~qvn~lID~lv~~~~~D~~~ar-~~c~~ylnAC 144 (196)
++.+ ++ ....+....+..|+.+++..|+.++-.+. -+--.|+..-
T Consensus 141 ~~~l----v~-~i~~ev~~~~~~ml~~Li~~L~~~l~l~~~ik~v~~Lrrl 186 (338)
T PF04124_consen 141 NIPL----VK-SIAQEVEAALQQMLSQLINQLRTPLKLPACIKTVGYLRRL 186 (338)
T ss_pred Cchh----HH-HHHHHHHHHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHh
Confidence 8443 22 23445556778899999999998864332 2445677766
No 8
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=63.21 E-value=40 Score=28.12 Aligned_cols=61 Identities=21% Similarity=0.353 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhccc--hhh-------ccC-----CcchHHHHHHHHHHHhhccce
Q psy7387 35 DQVEAHVEELRKMASQLENEKDQILTTIHTLKNM--DSL-------NDI-----GDNDKDDILRYLDRISLRCTT 95 (196)
Q Consensus 35 DqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~~s--~~l-------~~l-----~e~erEei~~~a~RL~~R~~T 95 (196)
+++..++.+||+....++..--.++..|.+.++. ..+ ... .+-+-++|..||-||+.-|..
T Consensus 25 q~~~~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L~~~~~~~~~~~~~~~~~~~~~v~~~eLL~YA~rISk~t~~ 99 (188)
T PF10018_consen 25 QENQARIQQLRAEIEELDEQIRDILKQLKEARKELRTLPDQADEKLKSIPKAEKRPVDYEELLSYAHRISKFTSA 99 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccCCCCHHHHHHHHHHHHHhcCC
Confidence 4456778999999999998888888887776652 111 222 233678999999999998877
No 9
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=55.55 E-value=1.4e+02 Score=26.11 Aligned_cols=111 Identities=14% Similarity=0.203 Sum_probs=65.7
Q ss_pred hHHHHHHHHHHHHHHHH-hhHhhHHHHHHHHHhhccchhhccCCcchHHHHHHHHHHHhhccceeEEEEeccCChHHHHH
Q psy7387 33 QLDQVEAHVEELRKMAS-QLENEKDQILTTIHTLKNMDSLNDIGDNDKDDILRYLDRISLRCTTIDVCVHTLRSDDQVES 111 (196)
Q Consensus 33 ~LDqlE~rVE~LRk~A~-~LE~EKe~Ll~sl~~i~~s~~l~~l~e~erEei~~~a~RL~~R~~TVeV~V~T~Rn~~QEeA 111 (196)
++++.....+++++.|. .++.||+..+..|.. .=.+..-..|.+++++..+ ..
T Consensus 91 il~~A~~ea~~~~~~a~~~ie~Ek~~a~~~L~~------------~v~~la~~~A~kiL~~~~d--------------~~ 144 (250)
T PRK14474 91 LLNEAREDVATARDEWLEQLEREKQEFFKALQQ------------QTGQQMVKIIRAALADLAN--------------AT 144 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHhhcC--------------HH
Confidence 34444555555555543 455555555554432 1223334566777776553 14
Q ss_pred HHHHHHHHHHHHHHhhcCHHHHHHHHHHHHhccCCCCCCCCcchhhhHHHhccchhhhHHHHHHHHH-HH
Q psy7387 112 LHQVNCLIDNLIIGMRETPEQTQTKCLSYVAACSSSSTVGNGDKTFEHAVLGCALDDQKRIRQRLNG-LL 180 (196)
Q Consensus 112 L~qvn~lID~lv~~~~~D~~~ar~~c~~ylnACss~~~~gp~DqkFqs~vIgCtlDDQKrIKkRLe~-Ll 180 (196)
+| ..+||..+.++..-|+..|+.+..- ++++.+. .+=--| .=+.++|.+|+.+|+. ++
T Consensus 145 ~~--~~lid~~i~~l~~l~~~~r~~l~~~--~~~~~~~--~i~ta~-----~l~~~~~~~~~~~l~~~~~ 203 (250)
T PRK14474 145 LE--QQIVGIFIARLEHLSEAERQALANS--NTTPEML--RIRTSF-----ELSQDLRAQILESLHQTHL 203 (250)
T ss_pred HH--HHHHHHHHHHhcccCHHHHHHHHhh--hcCCCCe--EEEeCC-----CCCHHHHHHHHHHHHHHhc
Confidence 44 3799999999999999999888765 3333321 111111 1246789999999998 76
No 10
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=54.16 E-value=71 Score=27.24 Aligned_cols=110 Identities=23% Similarity=0.365 Sum_probs=77.8
Q ss_pred CchhhHhhhHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhcc-chhhccCC-------------cchHHHHHHHHHHHh
Q psy7387 25 SLKDHLLGQLDQVEAHVEELRKMASQLENEKDQILTTIHTLKN-MDSLNDIG-------------DNDKDDILRYLDRIS 90 (196)
Q Consensus 25 ~~~~rll~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~~-s~~l~~l~-------------e~erEei~~~a~RL~ 90 (196)
..+.||.+-|-+++..|+.||+.-..-+.+|-+|-.+=..+.. ...+.+|. +.||+++...-+
T Consensus 55 ~eN~~L~epL~~a~~e~~eL~k~L~~y~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~~kf~--- 131 (201)
T PF13851_consen 55 QENKRLSEPLKKAEEEVEELRKQLKNYEKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKLEQERDELYRKFE--- 131 (201)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---
Confidence 3467899999999999999999999999988877665444433 22222222 236666654433
Q ss_pred hccceeEEEEeccCChHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHhccCCCCC
Q psy7387 91 LRCTTIDVCVHTLRSDDQVESLHQVNCLIDNLIIGMRETPEQTQTKCLSYVAACSSSST 149 (196)
Q Consensus 91 ~R~~TVeV~V~T~Rn~~QEeAL~qvn~lID~lv~~~~~D~~~ar~~c~~ylnACss~~~ 149 (196)
.++.+-+|.-.+. |.+...=+..|.+.++..-..+..++.||..++.
T Consensus 132 ----------~~i~evqQk~~~k--n~lLEkKl~~l~~~lE~keaqL~evl~~~nldp~ 178 (201)
T PF13851_consen 132 ----------SAIQEVQQKTGLK--NLLLEKKLQALSEQLEKKEAQLNEVLAAANLDPA 178 (201)
T ss_pred ----------HHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHH
Confidence 2333444443333 5678888889999999999999999999988863
No 11
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=45.43 E-value=30 Score=30.88 Aligned_cols=22 Identities=23% Similarity=0.280 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhc
Q psy7387 107 DQVESLHQVNCLIDNLIIGMRE 128 (196)
Q Consensus 107 ~QEeAL~qvn~lID~lv~~~~~ 128 (196)
.||.||.+++.=|.+|-..++.
T Consensus 52 vQE~AL~~a~~ri~eLe~ql~q 73 (247)
T PF09849_consen 52 VQEQALKQAQARIQELEAQLQQ 73 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 5999999999999999888755
No 12
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=44.21 E-value=47 Score=23.17 Aligned_cols=35 Identities=20% Similarity=0.481 Sum_probs=24.3
Q ss_pred chhhHhhhHHHHHHHHHHHHHHHHhhHhhHHHHHH
Q psy7387 26 LKDHLLGQLDQVEAHVEELRKMASQLENEKDQILT 60 (196)
Q Consensus 26 ~~~rll~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~ 60 (196)
.++-|-+--|.+|.+||.+=..-+.||.+|..|..
T Consensus 6 AkelLqe~~d~IEqkiedid~qIaeLe~KR~~Lv~ 40 (46)
T PF08946_consen 6 AKELLQEHYDNIEQKIEDIDEQIAELEAKRQRLVD 40 (46)
T ss_dssp ---------THHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 45567778899999999999999999999998864
No 13
>KOG1029|consensus
Probab=42.49 E-value=4.7e+02 Score=28.23 Aligned_cols=151 Identities=19% Similarity=0.167 Sum_probs=90.5
Q ss_pred hhHhhhHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhccchhhccCCc----------------chHHHHHHHHHHHhh
Q psy7387 28 DHLLGQLDQVEAHVEELRKMASQLENEKDQILTTIHTLKNMDSLNDIGD----------------NDKDDILRYLDRISL 91 (196)
Q Consensus 28 ~rll~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~~s~~l~~l~e----------------~erEei~~~a~RL~~ 91 (196)
.|.|+.=-.=|.+-|-.|++|+.-|.||-.=+++=. .+.-+.+.+.+. -|-+-++--..-|.+
T Consensus 380 QReiE~qrEEerkkeie~rEaar~ElEkqRqlewEr-ar~qem~~Qk~reqe~iv~~nak~~ql~~eletLn~k~qqls~ 458 (1118)
T KOG1029|consen 380 QREIERQREEERKKEIERREAAREELEKQRQLEWER-ARRQEMLNQKNREQEWIVYLNAKKKQLQQELETLNFKLQQLSG 458 (1118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 345555555556667778888887777766665422 111122222111 123345556678999
Q ss_pred ccceeEEEEeccCChHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHh-------------ccCCC--CCCCCcchh
Q psy7387 92 RCTTIDVCVHTLRSDDQVESLHQVNCLIDNLIIGMRETPEQTQTKCLSYVA-------------ACSSS--STVGNGDKT 156 (196)
Q Consensus 92 R~~TVeV~V~T~Rn~~QEeAL~qvn~lID~lv~~~~~D~~~ar~~c~~yln-------------ACss~--~~~gp~Dqk 156 (196)
|...|+|-+.|. ...+.-++..+|-+++.+. .-.+|.+.|-+ +=+.. ...++.+++
T Consensus 459 kl~Dvr~~~tt~-----kt~ie~~~~q~e~~isei~----qlqarikE~q~kl~~l~~Ekq~l~~qlkq~q~a~~~~~~~ 529 (1118)
T KOG1029|consen 459 KLQDVRVDITTQ-----KTEIEEVTKQRELMISEID----QLQARIKELQEKLQKLAPEKQELNHQLKQKQSAHKETTQR 529 (1118)
T ss_pred hhhhheeccchH-----HHHHHHhhhHHHHHHHHHH----HHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhhccCcchH
Confidence 999999999985 5678888888888877642 22333333322 11111 124455542
Q ss_pred hhHHHhccchhhhHHHHHHHHHHHHHHHHHhHhh
Q psy7387 157 FEHAVLGCALDDQKRIRQRLNGLLDYMTKEKWKK 190 (196)
Q Consensus 157 Fqs~vIgCtlDDQKrIKkRLe~Ll~yi~k~~~~k 190 (196)
...|.-+..-..-|+++|..-++.|.|++..|
T Consensus 530 --~s~L~aa~~~ke~irq~ikdqldelskE~esk 561 (1118)
T KOG1029|consen 530 --KSELEAARRKKELIRQAIKDQLDELSKETESK 561 (1118)
T ss_pred --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455566666778889988888888887655
No 14
>PF08651 DASH_Duo1: DASH complex subunit Duo1; InterPro: IPR013960 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=40.55 E-value=54 Score=24.41 Aligned_cols=35 Identities=20% Similarity=0.279 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHhccCCC
Q psy7387 109 VESLHQVNCLIDNLIIGMRETPEQTQTKCLSYVAACSSS 147 (196)
Q Consensus 109 EeAL~qvn~lID~lv~~~~~D~~~ar~~c~~ylnACss~ 147 (196)
-+.|.++|.+|+.++.. +..|+.....+.++|.+.
T Consensus 7 L~~Lr~IN~~ie~~~~~----L~~a~~~~~~v~~~~~~t 41 (78)
T PF08651_consen 7 LEQLRKINPVIEGLIET----LRSAKSNMNRVQETVEST 41 (78)
T ss_pred HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHH
Confidence 46788888888887766 567888888999998764
No 15
>PRK14126 cell division protein ZapA; Provisional
Probab=39.00 E-value=1.1e+02 Score=22.78 Aligned_cols=63 Identities=19% Similarity=0.356 Sum_probs=44.3
Q ss_pred eccCChHHHHHHHHHHHHHHHHHHHhhcC---HHHHHHHHHHHHhccCCCCCCCCcchhhhHHHhccchhhhHHHHHHHH
Q psy7387 101 HTLRSDDQVESLHQVNCLIDNLIIGMRET---PEQTQTKCLSYVAACSSSSTVGNGDKTFEHAVLGCALDDQKRIRQRLN 177 (196)
Q Consensus 101 ~T~Rn~~QEeAL~qvn~lID~lv~~~~~D---~~~ar~~c~~ylnACss~~~~gp~DqkFqs~vIgCtlDDQKrIKkRLe 177 (196)
-|++.+.+++.|++|-.++|+-+..+++- +...+.-.++-+|. +||.-+.|+.++
T Consensus 18 Y~i~~~e~ee~l~~vA~~vd~km~ei~~~~~~ls~~~iAVLaALNi----------------------a~El~k~~~~~~ 75 (85)
T PRK14126 18 YTIVGDESTSHIRMVAAIVDDKMRELNEKNPSLDTSKLAVLTAVNV----------------------IHDYIKLKEEYE 75 (85)
T ss_pred EEecCCCcHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH----------------------HHHHHHHHHHHH
Confidence 36677889999999999999998887642 22233333444443 467778888888
Q ss_pred HHHHHHHH
Q psy7387 178 GLLDYMTK 185 (196)
Q Consensus 178 ~Ll~yi~k 185 (196)
.|...|+.
T Consensus 76 ~l~~~~~~ 83 (85)
T PRK14126 76 KLKESMTK 83 (85)
T ss_pred HHHHHHhc
Confidence 88877754
No 16
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su
Probab=38.87 E-value=1.3e+02 Score=23.77 Aligned_cols=39 Identities=21% Similarity=0.377 Sum_probs=33.9
Q ss_pred hhHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhccchh
Q psy7387 32 GQLDQVEAHVEELRKMASQLENEKDQILTTIHTLKNMDS 70 (196)
Q Consensus 32 ~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~~s~~ 70 (196)
+.++.|+.+++.+++....|++-++.|-..++.+.+++.
T Consensus 78 ~~~~~l~~k~~~i~~~i~~L~~~~~~L~~~i~~~~~~~~ 116 (131)
T cd04786 78 ELLAALERKVADIEALEARLAQNKAQLLVLIDLIESKPD 116 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 345667789999999999999999999999999988776
No 17
>PF14148 YhdB: YhdB-like protein
Probab=38.47 E-value=30 Score=26.36 Aligned_cols=17 Identities=35% Similarity=0.610 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHh
Q psy7387 171 RIRQRLNGLLDYMTKEK 187 (196)
Q Consensus 171 rIKkRLe~Ll~yi~k~~ 187 (196)
-|-|+|.+|++||+..+
T Consensus 52 ~i~k~l~~Ll~YIdHA~ 68 (77)
T PF14148_consen 52 VIEKRLYALLRYIDHAN 68 (77)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 47799999999997765
No 18
>PF15237 PTRF_SDPR: PTRF/SDPR family
Probab=35.74 E-value=36 Score=30.85 Aligned_cols=80 Identities=11% Similarity=0.294 Sum_probs=65.6
Q ss_pred HhhhHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhccchhhccCCcchHHHHHHHHHHHhhccceeEEEEeccCChHHH
Q psy7387 30 LLGQLDQVEAHVEELRKMASQLENEKDQILTTIHTLKNMDSLNDIGDNDKDDILRYLDRISLRCTTIDVCVHTLRSDDQV 109 (196)
Q Consensus 30 ll~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~~s~~l~~l~e~erEei~~~a~RL~~R~~TVeV~V~T~Rn~~QE 109 (196)
++..||.|--.|+.++..=..||+-...|=.++.+||. +|..|+-.-- .-+-|.+.|+..+.-|-++|.++|...-.
T Consensus 7 VltLLdKl~~~vD~vQ~~Q~~mE~RQ~emE~sV~~IQ~--dl~KLsk~H~-~TsnTV~KLLeK~RKVS~~vk~Vr~r~ek 83 (246)
T PF15237_consen 7 VLTLLDKLAGMVDSVQETQQRMEERQREMEGSVKGIQG--DLTKLSKSHS-TTSNTVNKLLEKTRKVSVNVKEVRERLEK 83 (246)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHH--HHHHHHHhcc-cHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence 57789999999999999999999999999999999986 4555554322 23468899999999999999999987766
Q ss_pred HHH
Q psy7387 110 ESL 112 (196)
Q Consensus 110 eAL 112 (196)
.|.
T Consensus 84 Q~~ 86 (246)
T PF15237_consen 84 QAA 86 (246)
T ss_pred HHH
Confidence 664
No 19
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=32.40 E-value=1e+02 Score=23.92 Aligned_cols=35 Identities=20% Similarity=0.301 Sum_probs=24.8
Q ss_pred hHhhhHHHHHHHHHHHHHHHHhhHhhHHHHHHHHH
Q psy7387 29 HLLGQLDQVEAHVEELRKMASQLENEKDQILTTIH 63 (196)
Q Consensus 29 rll~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~ 63 (196)
.|-.-++.+...||.||..-.....||..||.+|+
T Consensus 53 ~L~~e~~~l~~E~e~L~~~l~~e~~Ek~~Ll~ll~ 87 (87)
T PF12709_consen 53 ELENENKALKRENEQLKKKLDTEREEKQELLKLLE 87 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 34444556666777777777777888888887763
No 20
>PF00645 zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region; InterPro: IPR001510 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents PARP (Poly(ADP) polymerase) type zinc finger domains. NAD(+) ADP-ribosyltransferase(2.4.2.30 from EC) [, ] is a eukaryotic enzyme that catalyses the covalent attachment of ADP-ribose units from NAD(+) to various nuclear acceptor proteins. This post-translational modification of nuclear proteins is dependent on DNA. It appears to be involved in the regulation of various important cellular processes such as differentiation, proliferation and tumour transformation as well as in the regulation of the molecular events involved in the recovery of the cell from DNA damage. Structurally, NAD(+) ADP-ribosyltransferase consists of three distinct domains: an N-terminal zinc-dependent DNA-binding domain, a central automodification domain and a C-terminal NAD-binding domain. The DNA-binding region contains a pair of PARP-type zinc finger domains which have been shown to bind DNA in a zinc-dependent manner. The PARP-type zinc finger domains seem to bind specifically to single-stranded DNA and to act as a DNA nick sensor. DNA ligase III [] contains, in its N-terminal section, a single copy of a zinc finger highly similar to those of PARP. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 1UW0_A 3OD8_D 3ODA_A 4AV1_A 2DMJ_A 4DQY_D 2L30_A 2CS2_A 2L31_A 3ODE_B ....
Probab=31.55 E-value=23 Score=25.32 Aligned_cols=13 Identities=31% Similarity=0.590 Sum_probs=10.5
Q ss_pred chhhhHHHHHHHH
Q psy7387 165 ALDDQKRIRQRLN 177 (196)
Q Consensus 165 tlDDQKrIKkRLe 177 (196)
..+||++|+++||
T Consensus 70 ~~~Dq~~i~~~i~ 82 (82)
T PF00645_consen 70 KPEDQEKIRKLIE 82 (82)
T ss_dssp -HHHHHHHHHHHS
T ss_pred CHHHHHHHHHHhC
Confidence 4789999999875
No 21
>PF07505 Gp37_Gp68: Phage protein Gp37/Gp68; InterPro: IPR011101 This entry is represented by Burkholderia phage phiE125, Gp37. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=30.17 E-value=26 Score=31.45 Aligned_cols=94 Identities=21% Similarity=0.235 Sum_probs=62.3
Q ss_pred HHHHHHHhhccce---eEEEEeccC-----------ChHHHHHHHH-----------HHHHHHHHHHHhhcC-HHHHHHH
Q psy7387 83 LRYLDRISLRCTT---IDVCVHTLR-----------SDDQVESLHQ-----------VNCLIDNLIIGMRET-PEQTQTK 136 (196)
Q Consensus 83 ~~~a~RL~~R~~T---VeV~V~T~R-----------n~~QEeAL~q-----------vn~lID~lv~~~~~D-~~~ar~~ 136 (196)
++||.|+..|..- .... ...+ -..++++|.+ ||+| ..-|+++ |..=+.+
T Consensus 27 nCYA~~~~~r~~~~~~~~~~-~~~~~~~~~~~w~~~~~~~~~~~~~p~~~~~~~~VFv~sm----SDlF~~~vpdew~~~ 101 (261)
T PF07505_consen 27 NCYAERMAKRFRGMGGKKYG-NGFRRRTGKSNWNGPVRLNRERLDQPLKWKKPRRVFVCSM----SDLFHEEVPDEWRDE 101 (261)
T ss_pred HhHHhhhHHHhccCCCCccC-CCccccccccccccceeechhhhhhhhhcCCCCEEEEecc----hhhcCcCCCHHHHHH
Confidence 6999999987632 1111 1111 1235555543 4444 4456777 8888999
Q ss_pred HHHHHhccCCCC------------CCCCcchh----hhHHHhccchhhhHHHHHHHHHHHH
Q psy7387 137 CLSYVAACSSSS------------TVGNGDKT----FEHAVLGCALDDQKRIRQRLNGLLD 181 (196)
Q Consensus 137 c~~ylnACss~~------------~~gp~Dqk----Fqs~vIgCtlDDQKrIKkRLe~Ll~ 181 (196)
+-..+.+|.-+- ..-|.+.. -.-+-||||.++|++..+|+..|+.
T Consensus 102 vf~~m~~~p~h~f~~LTKRp~R~~~~l~~~~~~~~~~~NvwlGvTvenQ~~ad~Rip~L~~ 162 (261)
T PF07505_consen 102 VFAVMRARPQHTFQFLTKRPERMREYLPSDWGDGDWPPNVWLGVTVENQKRADERIPILLE 162 (261)
T ss_pred HHHHHHhCCCeEEEEeeCCHHHHHHhccccccccCCCCceEEEEEEEchHHHHHhHHHHHh
Confidence 999998887651 11233332 5678999999999999999999875
No 22
>PF05413 Peptidase_C34: Putative closterovirus papain-like endopeptidase; InterPro: IPR008744 RNA-directed RNA polymerase (RdRp) (2.7.7.48 from EC) is an essential protein encoded in the genomes of all RNA containing viruses with no DNA stage [, ]. It catalyses synthesis of the RNA strand complementary to a given RNA template, but the precise molecular mechanism remains unclear. The postulated RNA replication process is a two-step mechanism. First, the initiation step of RNA synthesis begins at or near the 3' end of the RNA template by means of a primer-independent (de novo) mechanism. The de novo initiation consists in the addition of a nucleotide tri-phosphate (NTP) to the 3'-OH of the first initiating NTP. During the following so-called elongation phase, this nucleotidyl transfer reaction is repeated with subsequent NTPs to generate the complementary RNA product []. All the RNA-directed RNA polymerases, and many DNA-directed polymerases, employ a fold whose organisation has been likened to the shape of a right hand with three subdomains termed fingers, palm and thumb []. Only the catalytic palm subdomain, composed of a four-stranded antiparallel beta-sheet with two alpha-helices, is well conserved among all of these enzymes. In RdRp, the palm subdomain comprises three well conserved motifs (A, B and C). Motif A (D-x(4,5)-D) and motif C (GDD) are spatially juxtaposed; the Asp residues of these motifs are implied in the binding of Mg2+ and/or Mn2+. The Asn residue of motif B is involved in selection of ribonucleoside triphosphates over dNTPs and thus determines whether RNA is synthesised rather than DNA []. The domain organisation [] and the 3D structure of the catalytic centre of a wide range of RdPp's, even those with a low overall sequence homology, are conserved. The catalytic centre is formed by several motifs containing a number of conserved amino acid residues. There are 4 superfamilies of viruses that cover all RNA containing viruses with no DNA stage: Viruses containing positive-strand RNA or double-strand RNA, except retroviruses and Birnaviridae: viral RNA-directed RNA polymerases including all positive-strand RNA viruses with no DNA stage, double-strand RNA viruses, and the Cystoviridae, Reoviridae, Hypoviridae, Partitiviridae, Totiviridae families. Mononegavirales (negative-strand RNA viruses with non-segmented genomes). Negative-strand RNA viruses with segmented genomes, i.e. Orthomyxoviruses (including influenza A, B, and C viruses, Thogotoviruses, and the infectious salmon anemia virus), Arenaviruses, Bunyaviruses, Hantaviruses, Nairoviruses, Phleboviruses, Tenuiviruses and Tospoviruses. Birnaviridae family of dsRNA viruses. The RNA-directed RNA polymerases in the first of the above superfamilies can be divided into the following three subgroups: All positive-strand RNA eukaryotic viruses with no DNA stage. All RNA-containing bacteriophages -there are two families of RNA-containing bacteriophages: Leviviridae (positive ssRNA phages) and Cystoviridae (dsRNA phages). Reoviridae family of dsRNA viruses. This signature is found in the RNA-direct RNA polymerase of apple chlorotic leaf spot virus and cherry mottle virus.; GO: 0003723 RNA binding, 0003968 RNA-directed RNA polymerase activity, 0005524 ATP binding, 0019079 viral genome replication
Probab=27.55 E-value=95 Score=24.31 Aligned_cols=43 Identities=28% Similarity=0.494 Sum_probs=34.2
Q ss_pred HHHHHHHHHhhcCHHHHHHHHHHHHhccCCCCCCCCcchhhhHHHhccchhhhHHHH
Q psy7387 117 CLIDNLIIGMRETPEQTQTKCLSYVAACSSSSTVGNGDKTFEHAVLGCALDDQKRIR 173 (196)
Q Consensus 117 ~lID~lv~~~~~D~~~ar~~c~~ylnACss~~~~gp~DqkFqs~vIgCtlDDQKrIK 173 (196)
.|++.+..-++.+|+.--..|--.++-|-|.- ||.+||-|-|=
T Consensus 11 Clf~s~a~~I~Kkpeevm~~~phvldRCisNk--------------GCsidD~k~iC 53 (92)
T PF05413_consen 11 CLFVSVAEIIHKKPEEVMMFLPHVLDRCISNK--------------GCSIDDLKAIC 53 (92)
T ss_pred cHHHHHHHHHhcCHHHHHHhChHHHHHHHhcC--------------CCCHHHHHHHH
Confidence 46777777778899988888888889998764 78888887763
No 23
>PF13117 Cag12: Cag pathogenicity island protein Cag12
Probab=27.21 E-value=27 Score=27.93 Aligned_cols=17 Identities=24% Similarity=0.224 Sum_probs=12.4
Q ss_pred HHHhccCCCCCCCCcch
Q psy7387 139 SYVAACSSSSTVGNGDK 155 (196)
Q Consensus 139 ~ylnACss~~~~gp~Dq 155 (196)
.+|+||||-+++.+.|.
T Consensus 5 ~~L~gCSSpP~P~~v~~ 21 (113)
T PF13117_consen 5 LMLSGCSSPPEPPPVDW 21 (113)
T ss_pred eeehhcCCCCCCCCcCC
Confidence 47899988776666654
No 24
>cd01055 Nonheme_Ferritin nonheme-containing ferritins. Nonheme Ferritin domain, found in archaea and bacteria, is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The ferritin protein shell is composed of 24 protein subunits arranged in 432 symmetry. Each protein subunit, a four-helix bundle with a fifth short terminal helix, contains a dinuclear ferroxidase center (H type). Unique to this group of proteins is a third metal site in the ferroxidase center. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite.
Probab=26.71 E-value=2.4e+02 Score=21.86 Aligned_cols=106 Identities=8% Similarity=0.154 Sum_probs=62.5
Q ss_pred chhhccCCcchHHHHHHHHHHHhhccceeEEEEeccCChHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHhccCCC
Q psy7387 68 MDSLNDIGDNDKDDILRYLDRISLRCTTIDVCVHTLRSDDQVESLHQVNCLIDNLIIGMRETPEQTQTKCLSYVAACSSS 147 (196)
Q Consensus 68 s~~l~~l~e~erEei~~~a~RL~~R~~TVeV~V~T~Rn~~QEeAL~qvn~lID~lv~~~~~D~~~ar~~c~~ylnACss~ 147 (196)
...+...++.|++--...++||..|=.+|.+.- +-.|.- ......+-+-..+..-- .+......++.-|...
T Consensus 38 a~~f~~~a~eE~~HA~~l~~~i~~~gg~~~~~~--~~~~~~-----~~~~~~~~l~~al~~E~-~~~~~~~~l~~~A~~~ 109 (156)
T cd01055 38 ANFFRVQAQEEREHAMKFFDYLNDRGGRVELPA--IEAPPS-----EFESLLEVFEAALEHEQ-KVTESINNLVDLALEE 109 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCeeCCC--CCCCCc-----ccCCHHHHHHHHHHHHH-HHHHHHHHHHHHHHHc
Confidence 456677788899888999999998877776532 111110 00111121111111122 2555666777777665
Q ss_pred CCCCCcchhhhHHHhccchhhhHHHHHHHHHHHHHHHHHh
Q psy7387 148 STVGNGDKTFEHAVLGCALDDQKRIRQRLNGLLDYMTKEK 187 (196)
Q Consensus 148 ~~~gp~DqkFqs~vIgCtlDDQKrIKkRLe~Ll~yi~k~~ 187 (196)
+. |.-..|- .=-++||+.-.+.+.++++.|.+.+
T Consensus 110 ~D--~~~~~~l----~~~l~~q~e~~~~~~~~l~~l~~~g 143 (156)
T cd01055 110 KD--YATFNFL----QWFVKEQVEEEALARDILDKLKLAG 143 (156)
T ss_pred CC--HhHHHHH----HHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 43 3333332 2246899999999999999996653
No 25
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=26.63 E-value=2.4e+02 Score=20.33 Aligned_cols=30 Identities=20% Similarity=0.478 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHhhHhhHHHHHHHHHhhc
Q psy7387 37 VEAHVEELRKMASQLENEKDQILTTIHTLK 66 (196)
Q Consensus 37 lE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~ 66 (196)
++--|+.+......+.+..+.|+.+|+.+.
T Consensus 12 l~P~l~~~~~~l~el~~sQ~~L~~~i~~~~ 41 (92)
T PF14712_consen 12 LEPDLDRLDQQLQELRQSQEELLQQIDRLN 41 (92)
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444445555555555443
No 26
>PF04536 TPM: TLP18.3, Psb32 and MOLO-1 founding proteins of phosphatase; InterPro: IPR007621 This is a family of uncharacterised proteins. They are found in both eukarya and eubacteria. In eubacteria the region is towards the N-terminal of the protein and is accompanied by an N-terminal signal sequence. The C-terminal of eubacterial proteins typically contains one or more putative transmembrane regions. In eukaryotes the region is not accompanied by a signal sequence.; PDB: 3PTJ_A 3PW9_A 3PVH_A 2KPT_A 2KW7_A.
Probab=26.20 E-value=1e+02 Score=22.42 Aligned_cols=33 Identities=15% Similarity=0.332 Sum_probs=23.6
Q ss_pred CCcchHHHHHHHHHHHhhccceeEEEEeccCChH
Q psy7387 74 IGDNDKDDILRYLDRISLRCTTIDVCVHTLRSDD 107 (196)
Q Consensus 74 l~e~erEei~~~a~RL~~R~~TVeV~V~T~Rn~~ 107 (196)
||+.++++|+..+..+-.+ ..++|.|-|+++..
T Consensus 2 Ls~~~~~~l~~~l~~~~~~-t~~~i~Vvtv~~~~ 34 (119)
T PF04536_consen 2 LSQEERERLNQALAKLEKK-TGVQIVVVTVPSLP 34 (119)
T ss_dssp S-HHHHHHHHHHHHHHHHH-C--EEEEEEESB-T
T ss_pred CCHHHHHHHHHHHHHHHHh-hCCEEEEEEEcCCC
Confidence 6889999999999999554 45688888877753
No 27
>KOG0249|consensus
Probab=26.20 E-value=1.4e+02 Score=31.46 Aligned_cols=70 Identities=23% Similarity=0.326 Sum_probs=57.2
Q ss_pred CCchhhHhhhHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhccchhhccCCcchHHHHHHHHHHHhhccce
Q psy7387 24 LSLKDHLLGQLDQVEAHVEELRKMASQLENEKDQILTTIHTLKNMDSLNDIGDNDKDDILRYLDRISLRCTT 95 (196)
Q Consensus 24 ~~~~~rll~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~~s~~l~~l~e~erEei~~~a~RL~~R~~T 95 (196)
...++||.+.++++-.+|+.+|++--.|..++|.|.--++.+++ ....-.+.=|+.+..|++|...-..+
T Consensus 215 le~kn~L~~e~~s~kk~l~~~~~~k~rl~~d~E~Lr~e~~qL~~--~~~~~~~~mrd~~~~~~e~~~~~~~~ 284 (916)
T KOG0249|consen 215 LEDKNRLEQELESVKKQLEEMRHDKDKLRTDIEDLRGELDQLRR--SSLEKEQELRDHLRTYAERRRETETT 284 (916)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH--HHHhhhhhhcchhhhhHHHHHhhcch
Confidence 45678999999999999999999999999999999999999994 33333344488899999987665555
No 28
>PF05164 ZapA: Cell division protein ZapA; InterPro: IPR007838 This entry a structural domain found in the cell division protein ZapA, as well as in related proteins. This domain has a core structure consisting of two layers alpha/beta, and has a long C-terminal helix that forms dimeric parallel and tetrameric antiparallel coiled coils []. ZapA interacts with FtsZ, where FtsZ is part of a mid-cell cytokinetic structure termed the Z-ring that recruits a hierarchy of fission related proteins early in the bacterial cell cycle. ZapA drives the polymerisation and filament bundling of FtsZ, thereby contributing to the spatio-temporal tuning of the Z-ring.; PDB: 1T3U_B 1W2E_B 3HNW_A.
Probab=25.52 E-value=1.3e+02 Score=21.19 Aligned_cols=28 Identities=21% Similarity=0.389 Sum_probs=23.9
Q ss_pred ccC-ChHHHHHHHHHHHHHHHHHHHhhcC
Q psy7387 102 TLR-SDDQVESLHQVNCLIDNLIIGMRET 129 (196)
Q Consensus 102 T~R-n~~QEeAL~qvn~lID~lv~~~~~D 129 (196)
++. .+.+++.|.++-.+||+-+..++..
T Consensus 12 ~i~~~~~~ee~l~~~a~~i~~~i~~~~~~ 40 (89)
T PF05164_consen 12 RIKCPDEDEEYLRKAAELINEKINEIKKK 40 (89)
T ss_dssp EECETGCGHHHHHHHHHHHHHHHHHHCTT
T ss_pred EeecCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 345 6789999999999999999998764
No 29
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=24.75 E-value=86 Score=28.15 Aligned_cols=64 Identities=23% Similarity=0.327 Sum_probs=40.3
Q ss_pred HHHHHHHhhccceeEEEEeccCChHHHHHHHHHHHHHHH-HHHHhhcCHH-HHHHHHHHHHhccCCCCCCCCcchhhhHH
Q psy7387 83 LRYLDRISLRCTTIDVCVHTLRSDDQVESLHQVNCLIDN-LIIGMRETPE-QTQTKCLSYVAACSSSSTVGNGDKTFEHA 160 (196)
Q Consensus 83 ~~~a~RL~~R~~TVeV~V~T~Rn~~QEeAL~qvn~lID~-lv~~~~~D~~-~ar~~c~~ylnACss~~~~gp~DqkFqs~ 160 (196)
.-|-.||..+- +.|-||.++.|+ .||.+|=+ +-.. +.- .+|......+.-=... .=|++
T Consensus 132 ~fY~~~l~~~g----ievvvPdd~~q~----~v~~iIy~El~~G---~~~~~sr~~~~~ii~~l~~~--------Gae~v 192 (230)
T COG1794 132 GFYRKRLEEKG----IEVVVPDDDEQA----EVNRIIYEELCQG---IVKDASRELYLAVIERLAER--------GAEGV 192 (230)
T ss_pred HHHHHHHHHCC----ceEecCCHHHHH----HHHHHHHHHHhcc---cchHHHHHHHHHHHHHHHHc--------CCCEE
Confidence 36888888887 456678888776 47777765 5443 443 4666666555433222 23567
Q ss_pred Hhccc
Q psy7387 161 VLGCA 165 (196)
Q Consensus 161 vIgCt 165 (196)
|+|||
T Consensus 193 IlGCT 197 (230)
T COG1794 193 ILGCT 197 (230)
T ss_pred EEecc
Confidence 78887
No 30
>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6. In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.
Probab=24.70 E-value=79 Score=30.40 Aligned_cols=27 Identities=37% Similarity=0.473 Sum_probs=24.0
Q ss_pred CCchhhHhhhHHHHHHHHHHHHHHHHh
Q psy7387 24 LSLKDHLLGQLDQVEAHVEELRKMASQ 50 (196)
Q Consensus 24 ~~~~~rll~~LDqlE~rVE~LRk~A~~ 50 (196)
...|++|+.-+|.|+.-||.||++.+.
T Consensus 212 ~~~sd~Ll~kVdDLQD~VE~LRkDV~~ 238 (424)
T PF03915_consen 212 SEESDRLLTKVDDLQDLVEDLRKDVVQ 238 (424)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356899999999999999999999864
No 31
>PF05164 ZapA: Cell division protein ZapA; InterPro: IPR007838 This entry a structural domain found in the cell division protein ZapA, as well as in related proteins. This domain has a core structure consisting of two layers alpha/beta, and has a long C-terminal helix that forms dimeric parallel and tetrameric antiparallel coiled coils []. ZapA interacts with FtsZ, where FtsZ is part of a mid-cell cytokinetic structure termed the Z-ring that recruits a hierarchy of fission related proteins early in the bacterial cell cycle. ZapA drives the polymerisation and filament bundling of FtsZ, thereby contributing to the spatio-temporal tuning of the Z-ring.; PDB: 1T3U_B 1W2E_B 3HNW_A.
Probab=24.52 E-value=35 Score=24.13 Aligned_cols=44 Identities=14% Similarity=0.218 Sum_probs=36.6
Q ss_pred CCCchhhHhhhHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhc
Q psy7387 23 DLSLKDHLLGQLDQVEAHVEELRKMASQLENEKDQILTTIHTLK 66 (196)
Q Consensus 23 ~~~~~~rll~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~ 66 (196)
+....+.+-.....|+.+|..+++....+..++=.+|.+|+-.-
T Consensus 16 ~~~~ee~l~~~a~~i~~~i~~~~~~~~~~~~~~~~vlaaLnla~ 59 (89)
T PF05164_consen 16 PDEDEEYLRKAAELINEKINEIKKKYPKLSPERLAVLAALNLAD 59 (89)
T ss_dssp TGCGHHHHHHHHHHHHHHHHHHCTTCCTSSHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence 55677888999999999999999998888888888887776543
No 32
>PF15456 Uds1: Up-regulated During Septation
Probab=24.50 E-value=3.8e+02 Score=21.58 Aligned_cols=66 Identities=17% Similarity=0.170 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhccchhhccCCcchHHHHHHHHHHHhhccceeEEEEeccCChHHHHHHHH
Q psy7387 35 DQVEAHVEELRKMASQLENEKDQILTTIHTLKNMDSLNDIGDNDKDDILRYLDRISLRCTTIDVCVHTLRSDDQVESLHQ 114 (196)
Q Consensus 35 DqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~~s~~l~~l~e~erEei~~~a~RL~~R~~TVeV~V~T~Rn~~QEeAL~q 114 (196)
-.|+.|++.+|+.-. +|-..-....+|.-+..+..-. -.-.-.-...|+++|..
T Consensus 32 ~~L~~R~~~lr~kl~-le~k~RdAa~sl~~l~~~~~~~-------------------------~~~~~~~~~~~eeel~~ 85 (124)
T PF15456_consen 32 RSLDSRLEYLRRKLA-LESKIRDAAHSLSRLYSSSSRR-------------------------ARFSRESSLKAEEELAE 85 (124)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhcCCCccc-------------------------cCCCcchHHHHHHHHHH
Confidence 345667777776655 5544444444555444333221 11111224679999999
Q ss_pred HHHHHHHHHHHh
Q psy7387 115 VNCLIDNLIIGM 126 (196)
Q Consensus 115 vn~lID~lv~~~ 126 (196)
.+.-||+++.++
T Consensus 86 ~~rk~ee~~~eL 97 (124)
T PF15456_consen 86 SDRKCEELAQEL 97 (124)
T ss_pred HHhhHHHHHHHH
Confidence 999999999875
No 33
>PF10212 TTKRSYEDQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019348 This entry represents a C-terminal 500 residue region, which contains a conserved TTKRSYEDQ motif. It is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain an N-terminal domain with a KLRAQ motif (IPR019343 from INTERPRO). The function of these proteins is not known.
Probab=24.00 E-value=52 Score=32.65 Aligned_cols=47 Identities=11% Similarity=0.167 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHhhcCHHHHHHHHHHHHhccCCCCCCCCcchhhhHH
Q psy7387 113 HQVNCLIDNLIIGMRETPEQTQTKCLSYVAACSSSSTVGNGDKTFEHA 160 (196)
Q Consensus 113 ~qvn~lID~lv~~~~~D~~~ar~~c~~ylnACss~~~~gp~DqkFqs~ 160 (196)
-|++.+|-+++..+..=.--+.|||+-|.-.-+. +|-+|.++||-.-
T Consensus 3 ~~~~~~~~~~~~aL~n~~ty~eQR~~i~p~ds~~-~~~s~~~~kfs~~ 49 (518)
T PF10212_consen 3 GQALGFVQELVSALSNFHTYTEQRVQIFPIDSSI-EPISPVNQKFSQY 49 (518)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHhheeeecCCCC-CCCChHHHHHHHH
Confidence 3788999999999888888899999999877655 4579999999663
No 34
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=23.72 E-value=1.5e+02 Score=22.72 Aligned_cols=20 Identities=20% Similarity=0.310 Sum_probs=12.4
Q ss_pred hhhHHHHHHHHHHHHHHHHh
Q psy7387 31 LGQLDQVEAHVEELRKMASQ 50 (196)
Q Consensus 31 l~~LDqlE~rVE~LRk~A~~ 50 (196)
+++|+|||.+|-+-=+.-+.
T Consensus 3 ~EvleqLE~KIqqAvdtI~L 22 (79)
T PRK15422 3 LEVFEKLEAKVQQAIDTITL 22 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 57788888777654433333
No 35
>PRK14126 cell division protein ZapA; Provisional
Probab=23.22 E-value=1.2e+02 Score=22.70 Aligned_cols=55 Identities=18% Similarity=0.203 Sum_probs=44.1
Q ss_pred CccccCCCCcCCCCCchhhHhhhHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhh
Q psy7387 11 DVHIEEPKDVENDLSLKDHLLGQLDQVEAHVEELRKMASQLENEKDQILTTIHTL 65 (196)
Q Consensus 11 ~~~i~e~~~~~~~~~~~~rll~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i 65 (196)
+|.|....-...+..+.++|...-+-++.++..+++.+..+--+|-.+|.+|.-.
T Consensus 10 ~V~I~G~~Y~i~~~e~ee~l~~vA~~vd~km~ei~~~~~~ls~~~iAVLaALNia 64 (85)
T PRK14126 10 NVEIYGQQYTIVGDESTSHIRMVAAIVDDKMRELNEKNPSLDTSKLAVLTAVNVI 64 (85)
T ss_pred EEEECCEEEEecCCCcHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence 3445544434455667899999999999999999999999999999999988654
No 36
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=23.14 E-value=1.5e+02 Score=25.06 Aligned_cols=74 Identities=22% Similarity=0.342 Sum_probs=46.6
Q ss_pred hhHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhccchh---------hccCCcchHHHHHHHHHHHhhccceeE-EEEe
Q psy7387 32 GQLDQVEAHVEELRKMASQLENEKDQILTTIHTLKNMDS---------LNDIGDNDKDDILRYLDRISLRCTTID-VCVH 101 (196)
Q Consensus 32 ~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~~s~~---------l~~l~e~erEei~~~a~RL~~R~~TVe-V~V~ 101 (196)
+..+=+|.+|+.||++...|+..-+.|+.. -+.|+. +.=|....-+++......-+..-..|+ |.+.
T Consensus 40 ~avSL~erQ~~~LR~~~~~L~~~l~~Li~~---Ar~Ne~~~~~~~~l~l~LL~a~sl~~l~~~L~~~l~~~f~~~~v~L~ 116 (225)
T PF04340_consen 40 GAVSLVERQLERLRERNRQLEEQLEELIEN---ARENEAIFQRLHRLVLALLAARSLQELLQALDDGLREDFDVDAVRLR 116 (225)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHC--SHHHHHHHHHHHHHHTS--SEEEEE
T ss_pred CcccHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCCeEEEE
Confidence 477789999999999999999887777643 333333 334566677777777777777777776 5555
Q ss_pred ccCChHH
Q psy7387 102 TLRSDDQ 108 (196)
Q Consensus 102 T~Rn~~Q 108 (196)
-..++..
T Consensus 117 L~~~~~~ 123 (225)
T PF04340_consen 117 LFDDDAA 123 (225)
T ss_dssp EE-SS--
T ss_pred eeccccc
Confidence 4444333
No 37
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=22.34 E-value=2.6e+02 Score=22.58 Aligned_cols=58 Identities=17% Similarity=0.325 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhccch---hhccCCcchHHHHHHHHHHHhh
Q psy7387 34 LDQVEAHVEELRKMASQLENEKDQILTTIHTLKNMD---SLNDIGDNDKDDILRYLDRISL 91 (196)
Q Consensus 34 LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~~s~---~l~~l~e~erEei~~~a~RL~~ 91 (196)
|..++..+..||+....++.+--.|-.-|.++...+ .|...-..-++++..+-+||-.
T Consensus 74 l~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~ 134 (169)
T PF07106_consen 74 LAELDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEK 134 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555666788888888888888877777777777754 4554445556677777777764
No 38
>PRK15278 type III secretion protein BopE; Provisional
Probab=22.18 E-value=1.1e+02 Score=27.48 Aligned_cols=46 Identities=15% Similarity=0.220 Sum_probs=34.3
Q ss_pred EeccCChHHHHHHHHHHHHHHHHHHHh--------hcCHHHHHHHHHHHHhccCCC
Q psy7387 100 VHTLRSDDQVESLHQVNCLIDNLIIGM--------RETPEQTQTKCLSYVAACSSS 147 (196)
Q Consensus 100 V~T~Rn~~QEeAL~qvn~lID~lv~~~--------~~D~~~ar~~c~~ylnACss~ 147 (196)
|..-|-+- ++-.-+....|++++.| +.||+-+||.|.+.|.|-.|+
T Consensus 72 vgsyrp~G--D~K~~IR~~~D~~~~~~ahartpeirkDp~YaRQt~EA~LsaVYSe 125 (261)
T PRK15278 72 VGSYRPTG--DAKQAIRHFVDEAVKQVAHARTPEIRQDAEFGRQVYEATLCAIFSE 125 (261)
T ss_pred ecccCCCc--cHHHHHHHHHHHHHHHhhhccCcccccChHHHHHHHHHHHHHHHHH
Confidence 55556554 23344667778888877 789999999999999887775
No 39
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=21.57 E-value=2.7e+02 Score=19.47 Aligned_cols=36 Identities=14% Similarity=0.265 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHhcc
Q psy7387 109 VESLHQVNCLIDNLIIGMRETPEQTQTKCLSYVAAC 144 (196)
Q Consensus 109 EeAL~qvn~lID~lv~~~~~D~~~ar~~c~~ylnAC 144 (196)
+..|.++..+|+.|-..+++=|.+.|..++.-+..|
T Consensus 31 e~~l~ea~~~l~qMe~E~~~~p~s~r~~~~~kl~~y 66 (79)
T PF05008_consen 31 ERDLDEAEELLKQMELEVRSLPPSERNQYKSKLRSY 66 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHCTS-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 457889999999999999988888888877766555
No 40
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=21.40 E-value=75 Score=24.40 Aligned_cols=74 Identities=19% Similarity=0.169 Sum_probs=43.7
Q ss_pred HHHHHHHHhhc-cceeEEEEeccCChHHHHHHHHHH----HHHHHHHHHhhcCHHHHHHHHHHHHhccCCCCCCCCcchh
Q psy7387 82 ILRYLDRISLR-CTTIDVCVHTLRSDDQVESLHQVN----CLIDNLIIGMRETPEQTQTKCLSYVAACSSSSTVGNGDKT 156 (196)
Q Consensus 82 i~~~a~RL~~R-~~TVeV~V~T~Rn~~QEeAL~qvn----~lID~lv~~~~~D~~~ar~~c~~ylnACss~~~~gp~Dqk 156 (196)
+...-.+|... +..-=|.-..||+..|-++|.++- .-++.+| -+.-+.+....|+..
T Consensus 61 ~~ll~~~l~~~~~~~g~ildGfPrt~~Qa~~l~~~~~~~~~~~~~vi-~L~~~~~~~~~R~~~----------------- 122 (151)
T PF00406_consen 61 IELLKERLEQPPCNRGFILDGFPRTLEQAEALEEILEEEGIPPDLVI-FLDCPDETLIERLSQ----------------- 122 (151)
T ss_dssp HHHHHHHHHSGGTTTEEEEESB-SSHHHHHHHHHHHHHTTSEESEEE-EEE--HHHHHHHHHT-----------------
T ss_pred HHHHHHHHhhhcccceeeeeeccccHHHHHHHHHHHhhcccchheee-ccccchhhhhhhccc-----------------
Confidence 34555666666 556668889999999999987611 1111111 122233344444443
Q ss_pred hhHHHhccchhhhHHHHHHHHHHHHHH
Q psy7387 157 FEHAVLGCALDDQKRIRQRLNGLLDYM 183 (196)
Q Consensus 157 Fqs~vIgCtlDDQKrIKkRLe~Ll~yi 183 (196)
|+...|++||+.--.+.
T Consensus 123 ----------d~~~~i~~Rl~~y~~~~ 139 (151)
T PF00406_consen 123 ----------DNEEVIKKRLEEYRENT 139 (151)
T ss_dssp ----------GSHHHHHHHHHHHHHHH
T ss_pred ----------CCHHHHHHHHHHHHHHH
Confidence 88999999998765554
No 41
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=20.46 E-value=3e+02 Score=20.84 Aligned_cols=41 Identities=24% Similarity=0.364 Sum_probs=31.5
Q ss_pred hhHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhccchhhc
Q psy7387 32 GQLDQVEAHVEELRKMASQLENEKDQILTTIHTLKNMDSLN 72 (196)
Q Consensus 32 ~~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~~s~~l~ 72 (196)
..|+.|=.||+..+++-..|+.|-++|-.-|+++..+..++
T Consensus 30 ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nLm~~s~v~ 70 (80)
T PF10224_consen 30 DSLEALSDRVEEVKEENEKLESENEYLQQYIGNLMSSSSVF 70 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 46777777888888888888888888888888877655544
No 42
>PF02346 Vac_Fusion: Chordopoxvirus fusion protein; InterPro: IPR003436 This is a family of viral fusion proteins from the Chordopoxvirinae. A 14kDa Vaccinia virus protein has been demonstrated to function as a viral fusion protein mediating cell fusion at endosmomal (low) pH []. The protein, found in the envelope fraction of the virions, is required for fusing the outermost of the two golgi-derived membranes enveloping the virus with the plasma membrane, and its subsequent release extracellularly. The N-terminal proximal region is essential for its fusion ability.; GO: 0019064 viral envelope fusion with host membrane, 0019031 viral envelope
Probab=20.38 E-value=1.4e+02 Score=21.50 Aligned_cols=23 Identities=30% Similarity=0.510 Sum_probs=19.2
Q ss_pred hhHHHHHHHHHHHHHHHHhhHhh
Q psy7387 32 GQLDQVEAHVEELRKMASQLENE 54 (196)
Q Consensus 32 ~~LDqlE~rVE~LRk~A~~LE~E 54 (196)
+.++.||.|.|-||+.+..|.-+
T Consensus 29 ~~i~RLE~H~ETlRk~mv~L~kK 51 (57)
T PF02346_consen 29 EAIKRLEHHIETLRKYMVILAKK 51 (57)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 57889999999999998877643
No 43
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=20.13 E-value=1.3e+02 Score=23.31 Aligned_cols=36 Identities=22% Similarity=0.337 Sum_probs=29.7
Q ss_pred hHHHHHHHHHHHHHHHHhhHhhHHHHHHHHHhhccc
Q psy7387 33 QLDQVEAHVEELRKMASQLENEKDQILTTIHTLKNM 68 (196)
Q Consensus 33 ~LDqlE~rVE~LRk~A~~LE~EKe~Ll~sl~~i~~s 68 (196)
..-++..+++.+++.-..++++.+.|-.-+..++++
T Consensus 28 ~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~ 63 (105)
T PRK00888 28 DYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGG 63 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCc
Confidence 345677788888888888899999999888888875
Done!