Query psy4580
Match_columns 72
No_of_seqs 28 out of 30
Neff 3.4
Searched_HMMs 46136
Date Fri Aug 16 20:37:08 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4580.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4580hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0971|consensus 99.4 3.5E-13 7.7E-18 115.8 7.7 61 1-61 953-1013(1243)
2 PF08614 ATG16: Autophagy prot 93.8 0.34 7.4E-06 33.9 6.6 56 2-57 129-184 (194)
3 PRK11637 AmiB activator; Provi 86.7 9.2 0.0002 29.5 9.0 61 4-64 48-108 (428)
4 PRK11637 AmiB activator; Provi 82.7 16 0.00035 28.2 8.7 60 4-63 55-114 (428)
5 PF12718 Tropomyosin_1: Tropom 74.8 24 0.00052 24.1 8.1 40 4-43 15-54 (143)
6 PF00261 Tropomyosin: Tropomyo 69.4 40 0.00086 24.3 8.6 63 3-65 92-154 (237)
7 PF12777 MT: Microtubule-bindi 64.7 51 0.0011 25.0 7.4 63 3-65 221-283 (344)
8 COG1579 Zn-ribbon protein, pos 64.3 60 0.0013 24.6 7.6 46 3-48 45-90 (239)
9 PF15290 Syntaphilin: Golgi-lo 60.3 47 0.001 26.4 6.6 19 3-21 82-100 (305)
10 PF00261 Tropomyosin: Tropomyo 56.8 49 0.0011 23.8 5.8 36 23-58 35-84 (237)
11 smart00787 Spc7 Spc7 kinetocho 55.5 84 0.0018 24.2 7.2 29 6-34 214-242 (312)
12 COG2433 Uncharacterized conser 54.0 76 0.0016 27.6 7.3 38 23-64 473-510 (652)
13 PF11544 Spc42p: Spindle pole 52.7 33 0.00072 22.2 4.0 33 12-44 7-39 (76)
14 PF10211 Ax_dynein_light: Axon 50.7 88 0.0019 22.2 7.9 55 7-61 124-182 (189)
15 KOG1003|consensus 50.4 1.1E+02 0.0023 23.1 7.3 61 9-69 3-63 (205)
16 PF05983 Med7: MED7 protein; 49.6 49 0.0011 23.1 4.8 35 6-40 127-161 (162)
17 PF12718 Tropomyosin_1: Tropom 49.2 83 0.0018 21.5 8.3 64 5-68 51-117 (143)
18 PRK09039 hypothetical protein; 48.3 1.3E+02 0.0027 23.3 7.3 53 5-57 90-145 (343)
19 KOG0976|consensus 48.3 1.1E+02 0.0023 28.4 7.5 69 3-71 169-238 (1265)
20 PF10498 IFT57: Intra-flagella 46.6 17 0.00038 28.5 2.4 27 12-38 330-356 (359)
21 PF08317 Spc7: Spc7 kinetochor 44.2 1.4E+02 0.003 22.6 8.4 17 14-30 234-250 (325)
22 PF08317 Spc7: Spc7 kinetochor 44.2 1.4E+02 0.003 22.6 7.3 53 15-67 214-266 (325)
23 TIGR03185 DNA_S_dndD DNA sulfu 42.1 1.9E+02 0.0042 23.7 8.5 60 5-64 400-461 (650)
24 PF13870 DUF4201: Domain of un 40.3 1.2E+02 0.0026 20.7 8.7 59 2-60 55-113 (177)
25 KOG1962|consensus 38.8 1.7E+02 0.0036 22.0 7.3 49 8-56 156-204 (216)
26 TIGR02976 phageshock_pspB phag 38.7 46 0.001 21.0 3.0 20 52-71 49-68 (75)
27 PF06667 PspB: Phage shock pro 38.4 60 0.0013 20.6 3.5 21 51-71 48-68 (75)
28 KOG0243|consensus 36.2 3.2E+02 0.007 25.2 8.7 66 4-69 449-521 (1041)
29 PLN02281 chlorophyllide a oxyg 34.9 1.1E+02 0.0023 25.9 5.3 44 12-69 123-166 (536)
30 PF07888 CALCOCO1: Calcium bin 34.4 2.9E+02 0.0063 23.5 8.7 9 58-66 219-227 (546)
31 PRK09458 pspB phage shock prot 32.7 74 0.0016 20.5 3.2 21 51-71 48-68 (75)
32 PRK10698 phage shock protein P 32.1 2E+02 0.0043 20.9 7.7 65 4-68 107-182 (222)
33 COG4942 Membrane-bound metallo 32.1 2.9E+02 0.0063 22.8 7.6 34 9-42 72-105 (420)
34 KOG3091|consensus 31.1 2.7E+02 0.006 23.6 7.1 54 13-66 337-390 (508)
35 COG4026 Uncharacterized protei 30.6 2.7E+02 0.0059 22.0 6.9 55 11-68 132-186 (290)
36 PRK13729 conjugal transfer pil 30.2 1.8E+02 0.0038 24.4 5.8 25 24-48 69-93 (475)
37 KOG4010|consensus 29.1 78 0.0017 24.0 3.3 36 2-37 50-85 (208)
38 KOG4552|consensus 29.0 43 0.00093 26.1 2.0 23 1-23 79-101 (272)
39 PRK03947 prefoldin subunit alp 28.8 1.7E+02 0.0037 19.1 5.2 35 33-67 96-130 (140)
40 TIGR00293 prefoldin, archaeal 28.5 1.6E+02 0.0035 18.7 5.2 37 33-69 88-124 (126)
41 PF05667 DUF812: Protein of un 28.2 2.9E+02 0.0063 23.3 6.8 10 59-68 394-403 (594)
42 PF02994 Transposase_22: L1 tr 27.1 2.4E+02 0.0053 22.0 5.8 37 29-65 142-178 (370)
43 PF08912 Rho_Binding: Rho Bind 26.5 1.8E+02 0.0038 18.5 4.6 12 58-69 55-66 (69)
44 PRK04863 mukB cell division pr 26.3 5.5E+02 0.012 24.3 8.6 17 27-43 379-395 (1486)
45 PF10046 BLOC1_2: Biogenesis o 26.2 1.8E+02 0.0039 18.5 4.4 24 46-69 60-83 (99)
46 PF08461 HTH_12: Ribonuclease 25.6 88 0.0019 18.6 2.6 23 13-35 17-39 (66)
47 PF09789 DUF2353: Uncharacteri 25.5 1.3E+02 0.0028 23.8 4.0 55 3-66 93-147 (319)
48 PF10498 IFT57: Intra-flagella 24.5 3.6E+02 0.0077 21.3 8.3 63 4-69 256-318 (359)
49 PF05250 UPF0193: Uncharacteri 24.1 2.4E+02 0.0053 21.0 5.1 41 26-67 157-197 (212)
50 PF08232 Striatin: Striatin fa 23.8 1.9E+02 0.0042 19.5 4.3 27 25-51 26-55 (134)
51 PF10267 Tmemb_cc2: Predicted 23.1 3.6E+02 0.0078 21.8 6.2 45 24-68 219-267 (395)
52 smart00787 Spc7 Spc7 kinetocho 23.0 3.6E+02 0.0077 20.8 8.4 32 36-67 230-261 (312)
53 PF04201 TPD52: Tumour protein 22.9 1.2E+02 0.0026 22.0 3.2 36 2-37 35-70 (162)
54 PF13874 Nup54: Nucleoporin co 22.8 2.4E+02 0.0053 18.8 5.8 48 13-60 33-80 (141)
55 PF02841 GBP_C: Guanylate-bind 22.8 3.2E+02 0.007 20.2 7.1 37 8-44 188-224 (297)
56 PF05278 PEARLI-4: Arabidopsis 22.7 2.4E+02 0.0052 21.9 5.0 29 5-33 202-230 (269)
57 PHA02562 46 endonuclease subun 22.4 3.8E+02 0.0082 20.9 8.0 35 13-47 340-374 (562)
58 COG2433 Uncharacterized conser 22.3 2E+02 0.0043 25.2 4.9 43 3-45 474-518 (652)
59 PF14772 NYD-SP28: Sperm tail 22.3 2E+02 0.0043 18.1 3.9 25 5-29 71-95 (104)
60 PF12041 DELLA: Transcriptiona 22.2 49 0.0011 21.3 1.0 20 50-69 12-31 (73)
61 PF13851 GAS: Growth-arrest sp 22.0 3.1E+02 0.0066 19.6 8.7 58 4-61 63-123 (201)
62 PF07544 Med9: RNA polymerase 21.8 1.7E+02 0.0037 18.1 3.4 29 3-31 52-80 (83)
63 PF12777 MT: Microtubule-bindi 21.6 3.7E+02 0.0079 20.4 9.0 32 3-34 8-39 (344)
64 TIGR03185 DNA_S_dndD DNA sulfu 20.8 4.8E+02 0.01 21.5 7.6 40 4-43 210-249 (650)
65 PF13234 rRNA_proc-arch: rRNA- 20.8 2.1E+02 0.0045 20.6 4.2 28 18-45 208-235 (268)
66 PF06810 Phage_GP20: Phage min 20.5 3E+02 0.0065 19.0 5.5 44 3-50 34-77 (155)
67 COG1422 Predicted membrane pro 20.4 2.9E+02 0.0063 20.7 4.9 35 23-57 71-106 (201)
68 PF12844 HTH_19: Helix-turn-he 20.3 77 0.0017 17.5 1.5 18 11-28 3-20 (64)
No 1
>KOG0971|consensus
Probab=99.43 E-value=3.5e-13 Score=115.83 Aligned_cols=61 Identities=41% Similarity=0.529 Sum_probs=56.6
Q ss_pred ChhhhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHH
Q psy4580 1 MKSKLEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRI 61 (72)
Q Consensus 1 ~~~KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~ 61 (72)
|+.++|+||++|++||+++|+|++|+|||+||++|+||||+++.++.++++.+++.+.+..
T Consensus 953 L~~tle~re~eikeLkk~aKmkqeelSe~qvRldmaEkkLss~~k~~~h~v~~~~ek~ee~ 1013 (1243)
T KOG0971|consen 953 LGLTLEDRETEIKELKKSAKMKQEELSEAQVRLDLAEKKLSSAAKDADHRVEKVQEKLEET 1013 (1243)
T ss_pred hhhhHHhhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHHHHHHHHHH
Confidence 5789999999999999999999999999999999999999999999999999998764433
No 2
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=93.84 E-value=0.34 Score=33.92 Aligned_cols=56 Identities=14% Similarity=0.209 Sum_probs=50.2
Q ss_pred hhhhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Q psy4580 2 KSKLEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCV 57 (72)
Q Consensus 2 ~~KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~ 57 (72)
..++.+++..|++..+++-.=++|+...++-..++|.|+..+..|+..=+++|=..
T Consensus 129 ~~~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rwm~~ 184 (194)
T PF08614_consen 129 EEKIKDLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEEENRELVERWMQR 184 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34677889999999999999999999999999999999999999999998887544
No 3
>PRK11637 AmiB activator; Provisional
Probab=86.70 E-value=9.2 Score=29.54 Aligned_cols=61 Identities=18% Similarity=0.284 Sum_probs=28.5
Q ss_pred hhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Q psy4580 4 KLEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQL 64 (72)
Q Consensus 4 KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~ 64 (72)
+|.+....|.++...++..+.+++++.-.++-++++++.+....+..-+.+.....+++++
T Consensus 48 ~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l 108 (428)
T PRK11637 48 QLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDEL 108 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444555555555555544444444444444444444444444444444444443333333
No 4
>PRK11637 AmiB activator; Provisional
Probab=82.69 E-value=16 Score=28.24 Aligned_cols=60 Identities=10% Similarity=0.145 Sum_probs=26.9
Q ss_pred hhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHH
Q psy4580 4 KLEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQ 63 (72)
Q Consensus 4 KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q 63 (72)
++...+.+|.+++..++.-..++....-.+.-++.++.....+-..--.++.....+|.+
T Consensus 55 qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~ 114 (428)
T PRK11637 55 DIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAK 114 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555544444444444444444444444444443333333333333333
No 5
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=74.83 E-value=24 Score=24.12 Aligned_cols=40 Identities=25% Similarity=0.333 Sum_probs=22.5
Q ss_pred hhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhh
Q psy4580 4 KLEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANA 43 (72)
Q Consensus 4 KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a 43 (72)
+.+.-+..+++|.-....+.++|...+.|...+|.-++.+
T Consensus 15 r~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~ 54 (143)
T PF12718_consen 15 RAEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKL 54 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555566666666666666666666666665444433
No 6
>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....
Probab=69.36 E-value=40 Score=24.28 Aligned_cols=63 Identities=19% Similarity=0.303 Sum_probs=46.2
Q ss_pred hhhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHH
Q psy4580 3 SKLEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQLE 65 (72)
Q Consensus 3 ~KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~ 65 (72)
-+|+.-|..+++.+..+..-..-+.+...|..++|..|+.+-.-.+..-.++....++|..+.
T Consensus 92 eri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~ 154 (237)
T PF00261_consen 92 ERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVG 154 (237)
T ss_dssp HHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHH
Confidence 356777788888888888888888888888888888887777666666666666655555443
No 7
>PF12777 MT: Microtubule-binding stalk of dynein motor; InterPro: IPR024743 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules (D1-6), of which four correspond to the ATP binding sites with P-loop signatures, and two are modules in which the P loop has been lost in evolution. This domain occurs between D4 and D5 and includes the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [].; PDB: 3VKH_A 3VKG_A 3ERR_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 2RR7_A.
Probab=64.72 E-value=51 Score=25.00 Aligned_cols=63 Identities=22% Similarity=0.365 Sum_probs=40.3
Q ss_pred hhhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHH
Q psy4580 3 SKLEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQLE 65 (72)
Q Consensus 3 ~KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~ 65 (72)
.+|+.-+..+.+....|..++.++.+..-++.-+.+.++.+..+...--..++.-..+++.-+
T Consensus 221 ~~l~~a~~~l~~~~~~L~~~~~~l~~l~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~kl~rA~ 283 (344)
T PF12777_consen 221 QKLEEAEAELEEAEEQLAEKQAELAELEEKLAALQKEYEEAQKEKQELEEEIEETERKLERAE 283 (344)
T ss_dssp HHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccHH
Confidence 456666677777777788888888777777777777777666665544444444444444333
No 8
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=64.28 E-value=60 Score=24.56 Aligned_cols=46 Identities=30% Similarity=0.386 Sum_probs=38.2
Q ss_pred hhhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHH
Q psy4580 3 SKLEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKD 48 (72)
Q Consensus 3 ~KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e 48 (72)
..+++++..+.+++.....=+.++.+++=|++-++.+++++....+
T Consensus 45 ~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e 90 (239)
T COG1579 45 KALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERE 90 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHH
Confidence 4678888888899988888899999999999999999966655443
No 9
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=60.32 E-value=47 Score=26.42 Aligned_cols=19 Identities=37% Similarity=0.627 Sum_probs=15.8
Q ss_pred hhhhhhHHhHHHHHHHHhh
Q psy4580 3 SKLEERERDIKDLKILLRS 21 (72)
Q Consensus 3 ~KLE~RE~~IkELKkaLK~ 21 (72)
.+|.+||++|.|||..|--
T Consensus 82 ~~l~dRetEI~eLksQL~R 100 (305)
T PF15290_consen 82 NRLHDRETEIDELKSQLAR 100 (305)
T ss_pred HHHHhhHHHHHHHHHHHHH
Confidence 4688999999999988843
No 10
>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....
Probab=56.76 E-value=49 Score=23.81 Aligned_cols=36 Identities=28% Similarity=0.368 Sum_probs=21.2
Q ss_pred hhhhhHHHHHHHHHH--------------HHHHhhhhhHHHHHHHHHHHH
Q psy4580 23 QEEIGEISVRKDLAE--------------SKLANAIRDKDYQEQKLKCVT 58 (72)
Q Consensus 23 ~eElsEm~VR~~L~E--------------KKL~~a~ke~e~~~~kl~~~~ 58 (72)
..++..++-|+.++| .||..+.+..++.-..++..+
T Consensus 35 E~e~~~l~rri~~lE~~le~~eerL~~~~~kL~~~e~~~de~er~~k~lE 84 (237)
T PF00261_consen 35 EAEVASLQRRIQLLEEELERAEERLEEATEKLEEAEKRADESERARKVLE 84 (237)
T ss_dssp HHHHHHHHHHHHHHHCCCHHHHCCCCHHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456667777777765 455555566555544444443
No 11
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=55.46 E-value=84 Score=24.20 Aligned_cols=29 Identities=17% Similarity=0.169 Sum_probs=11.9
Q ss_pred hhhHHhHHHHHHHHhhhhhhhhHHHHHHH
Q psy4580 6 EERERDIKDLKILLRSKQEEIGEISVRKD 34 (72)
Q Consensus 6 E~RE~~IkELKkaLK~K~eElsEm~VR~~ 34 (72)
..-..+|...+..+-.++.++++...++.
T Consensus 214 ~~~~~ei~~~~~~l~e~~~~l~~l~~~I~ 242 (312)
T smart00787 214 KKLLQEIMIKVKKLEELEEELQELESKIE 242 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444444444444444444444333
No 12
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=54.04 E-value=76 Score=27.62 Aligned_cols=38 Identities=16% Similarity=0.229 Sum_probs=19.4
Q ss_pred hhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Q psy4580 23 QEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQL 64 (72)
Q Consensus 23 ~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~ 64 (72)
.-|+..+.-|+.-++++|.+... .++.|.+.++++.+|
T Consensus 473 ~rei~~~~~~I~~L~~~L~e~~~----~ve~L~~~l~~l~k~ 510 (652)
T COG2433 473 DREIRARDRRIERLEKELEEKKK----RVEELERKLAELRKM 510 (652)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHH
Confidence 33455555566666666655433 333355555544443
No 13
>PF11544 Spc42p: Spindle pole body component Spc42p; InterPro: IPR021611 Spc42p is a 42kDa component of the S.cerevisiae spindle body that localises to the electron dense central region of the SPB. Spc42p is a phosphoprotein which forms a polymeric layer at the periphery of the SPB central plaque. This functions during SPB duplication and also facilitates the attachment of the SPB to the nuclear membrane. ; PDB: 2Q6Q_B.
Probab=52.70 E-value=33 Score=22.16 Aligned_cols=33 Identities=33% Similarity=0.339 Sum_probs=26.9
Q ss_pred HHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhh
Q psy4580 12 IKDLKILLRSKQEEIGEISVRKDLAESKLANAI 44 (72)
Q Consensus 12 IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ 44 (72)
-++|++.|..|++||...++=.+=+..||-.-+
T Consensus 7 Nk~L~~kL~~K~eEI~rLn~lv~sLR~KLiKYt 39 (76)
T PF11544_consen 7 NKELKKKLNDKQEEIDRLNILVGSLRGKLIKYT 39 (76)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 478999999999999999988888877765433
No 14
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=50.67 E-value=88 Score=22.19 Aligned_cols=55 Identities=15% Similarity=0.187 Sum_probs=33.1
Q ss_pred hhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhh----hhhHHHHHHHHHHHHHHH
Q psy4580 7 ERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANA----IRDKDYQEQKLKCVTNRI 61 (72)
Q Consensus 7 ~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a----~ke~e~~~~kl~~~~~~~ 61 (72)
+.+..|.+|+.....=..++.++..+.+.++++.+.. .+-+.+.++.+++.-+.+
T Consensus 124 ~l~~~i~~L~~e~~~L~~~~~~l~~~~e~~ek~~~e~~~~~~k~~~~ei~~lk~~~~ql 182 (189)
T PF10211_consen 124 ELEEEIEELEEEKEELEKQVQELKNKCEQLEKREEELRQEEEKKHQEEIDFLKKQNQQL 182 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456677777766666777777777777777665543 233444455555554444
No 15
>KOG1003|consensus
Probab=50.44 E-value=1.1e+02 Score=23.14 Aligned_cols=61 Identities=30% Similarity=0.375 Sum_probs=49.4
Q ss_pred HHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Q psy4580 9 ERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQLEEVVD 69 (72)
Q Consensus 9 E~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~~~~~ 69 (72)
+++|.-|+.-+-.=.+++--.+=|..-+--||..+.+.+++.-.-.+..+++.-|+|+.++
T Consensus 3 e~~va~lnrri~~leeele~aqErl~~a~~KL~Eaeq~~dE~er~~Kv~enr~~kdEE~~e 63 (205)
T KOG1003|consen 3 EADVAALNRRIQLLEEELDRAQERLATALQKLEEAEQAADESERGMKVIENRAQKLEEKME 63 (205)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHhhHHHHH
Confidence 5677777777777778888888888888889999999998877777788888888888765
No 16
>PF05983 Med7: MED7 protein; InterPro: IPR009244 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. This family consists of several eukaryotic proteins, which are homologues of the yeast MED7 protein. Activation of gene transcription in metazoans is a multistep process that is triggered by factors that recognise transcriptional enhancer sites in DNA. These factors work with co-activators such as MED7 to direct transcriptional initiation by the RNA polymerase II apparatus [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 3FBI_C 3FBN_A 1YKH_A 1YKE_A.
Probab=49.59 E-value=49 Score=23.09 Aligned_cols=35 Identities=34% Similarity=0.303 Sum_probs=29.3
Q ss_pred hhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHH
Q psy4580 6 EERERDIKDLKILLRSKQEEIGEISVRKDLAESKL 40 (72)
Q Consensus 6 E~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL 40 (72)
..||+.|.-|+..++.|.+++..++-..+=++..|
T Consensus 127 QARetLi~~me~Ql~~kr~~i~~i~~~~~~~~~~l 161 (162)
T PF05983_consen 127 QARETLIMMMEEQLEEKREEIEEIRKVCEKAREVL 161 (162)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46899999999999999999999888777666655
No 17
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=49.19 E-value=83 Score=21.47 Aligned_cols=64 Identities=22% Similarity=0.305 Sum_probs=37.6
Q ss_pred hhhhHHhHHHHHHHHhhhhhhhhH---HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhh
Q psy4580 5 LEERERDIKDLKILLRSKQEEIGE---ISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQLEEVV 68 (72)
Q Consensus 5 LE~RE~~IkELKkaLK~K~eElsE---m~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~~~~ 68 (72)
|+.-+..+.+++..+-......+. ++-|+.++|.-|+.+..-......++..-..+..++|.-|
T Consensus 51 ld~~~~~l~~~k~~lee~~~~~~~~E~l~rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv 117 (143)
T PF12718_consen 51 LDKLEEQLKEAKEKLEESEKRKSNAEQLNRRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKV 117 (143)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 333444444555555444433333 6677777777777777777666666666666666666543
No 18
>PRK09039 hypothetical protein; Validated
Probab=48.30 E-value=1.3e+02 Score=23.28 Aligned_cols=53 Identities=17% Similarity=0.067 Sum_probs=34.4
Q ss_pred hhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHH---HHHHHHHH
Q psy4580 5 LEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDY---QEQKLKCV 57 (72)
Q Consensus 5 LE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~---~~~kl~~~ 57 (72)
++.-+..-.+|..++..+.+..+++..|.+.+...|++....+.+ .++.|+.+
T Consensus 90 l~~a~~~r~~Le~~~~~~~~~~~~~~~~~~~l~~~L~~~k~~~se~~~~V~~L~~q 145 (343)
T PRK09039 90 LSAAEAERSRLQALLAELAGAGAAAEGRAGELAQELDSEKQVSARALAQVELLNQQ 145 (343)
T ss_pred HHHHHHHHHHHHHHHhhhhhhcchHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 344444555666666667777788888888888888766555444 45555555
No 19
>KOG0976|consensus
Probab=48.26 E-value=1.1e+02 Score=28.35 Aligned_cols=69 Identities=17% Similarity=0.289 Sum_probs=56.2
Q ss_pred hhhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHH-HHHHHHHHHHhhhcc
Q psy4580 3 SKLEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKC-VTNRINQLEEVVDLK 71 (72)
Q Consensus 3 ~KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~-~~~~~~q~~~~~~~~ 71 (72)
.-|-++-++|.++...+-.|.+|.++.+--..-.=+++.++....|.+++-+.. +..+.+-+++|..|-
T Consensus 169 ~~L~nk~~~lt~~~~q~~tkl~e~~~en~~le~k~~k~~e~~~~nD~~sle~~~~q~~tq~vl~ev~QLs 238 (1265)
T KOG0976|consen 169 EDLHDKNEELNEFNMEFQTKLAEANREKKALEEKLEKFKEDLIEKDQKSLELHKDQENTQKVLKEVMQLS 238 (1265)
T ss_pred HHHhhhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457788899999999999999999988877766668999999999998887654 477777788876653
No 20
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=46.58 E-value=17 Score=28.51 Aligned_cols=27 Identities=26% Similarity=0.382 Sum_probs=22.2
Q ss_pred HHHHHHHHhhhhhhhhHHHHHHHHHHH
Q psy4580 12 IKDLKILLRSKQEEIGEISVRKDLAES 38 (72)
Q Consensus 12 IkELKkaLK~K~eElsEm~VR~~L~EK 38 (72)
+..+|.|+.-=..|+.+|.||+|+++-
T Consensus 330 lv~IKqAl~kLk~EI~qMdvrIGVleh 356 (359)
T PF10498_consen 330 LVKIKQALTKLKQEIKQMDVRIGVLEH 356 (359)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhheehh
Confidence 346788877778899999999999874
No 21
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=44.25 E-value=1.4e+02 Score=22.58 Aligned_cols=17 Identities=29% Similarity=0.423 Sum_probs=6.3
Q ss_pred HHHHHHhhhhhhhhHHH
Q psy4580 14 DLKILLRSKQEEIGEIS 30 (72)
Q Consensus 14 ELKkaLK~K~eElsEm~ 30 (72)
+++..+......+.+..
T Consensus 234 el~~el~~l~~~i~~~~ 250 (325)
T PF08317_consen 234 ELQEELEELEEKIEELE 250 (325)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333333333333333
No 22
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=44.16 E-value=1.4e+02 Score=22.57 Aligned_cols=53 Identities=17% Similarity=0.169 Sum_probs=20.7
Q ss_pred HHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHh
Q psy4580 15 LKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQLEEV 67 (72)
Q Consensus 15 LKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~~~ 67 (72)
+|..|..-..++..++-.+.=++..+......-+....+.+....+|++++.+
T Consensus 214 lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~ 266 (325)
T PF08317_consen 214 LRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEKI 266 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333333334433333333333444444444444433
No 23
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=42.13 E-value=1.9e+02 Score=23.70 Aligned_cols=60 Identities=17% Similarity=0.258 Sum_probs=27.5
Q ss_pred hhhhHHhHHHHHHHHhhh--hhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Q psy4580 5 LEERERDIKDLKILLRSK--QEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQL 64 (72)
Q Consensus 5 LE~RE~~IkELKkaLK~K--~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~ 64 (72)
+..-+..|.++...|..- .+.++.+.-++.-+++++..+..+....-+++......++++
T Consensus 400 ~~~~e~el~~l~~~l~~~~~~e~i~~l~e~l~~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~ 461 (650)
T TIGR03185 400 LRELEEELAEVDKKISTIPSEEQIAQLLEELGEAQNELFRSEAEIEELLRQLETLKEAIEAL 461 (650)
T ss_pred HHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444455555544432 244455554555555555555444444444444433333333
No 24
>PF13870 DUF4201: Domain of unknown function (DUF4201)
Probab=40.32 E-value=1.2e+02 Score=20.68 Aligned_cols=59 Identities=15% Similarity=0.274 Sum_probs=35.0
Q ss_pred hhhhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHH
Q psy4580 2 KSKLEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNR 60 (72)
Q Consensus 2 ~~KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~ 60 (72)
..|||+|..++..||.....-..-++-..=...++...+.....+-..+-..+......
T Consensus 55 ~~kIeERn~eL~~Lk~~~~~~v~~L~h~keKl~~~~~~~~~l~~~l~~~~~~~~~~r~~ 113 (177)
T PF13870_consen 55 NEKIEERNKELLKLKKKIGKTVQILTHVKEKLHFLSEELERLKQELKDREEELAKLREE 113 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46889999999999877665555555555445555555555544444444444333333
No 25
>KOG1962|consensus
Probab=38.84 E-value=1.7e+02 Score=22.02 Aligned_cols=49 Identities=14% Similarity=0.161 Sum_probs=30.0
Q ss_pred hHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Q psy4580 8 RERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKC 56 (72)
Q Consensus 8 RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~ 56 (72)
-.++..-|+..++.++-++...+=-.+-+.|..+....++|--.++-+.
T Consensus 156 ~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~ 204 (216)
T KOG1962|consen 156 LKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSK 204 (216)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence 3445555666666666666666666666666666666666654444333
No 26
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=38.69 E-value=46 Score=21.01 Aligned_cols=20 Identities=30% Similarity=0.521 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHhhhcc
Q psy4580 52 QKLKCVTNRINQLEEVVDLK 71 (72)
Q Consensus 52 ~kl~~~~~~~~q~~~~~~~~ 71 (72)
+..++..+|++.||.++|-.
T Consensus 49 ~~a~rm~eRI~tLE~ILd~e 68 (75)
T TIGR02976 49 AKADRLEERIDTLERILDAE 68 (75)
T ss_pred HHHHHHHHHHHHHHHHHcCC
Confidence 34677799999999999854
No 27
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=38.36 E-value=60 Score=20.56 Aligned_cols=21 Identities=24% Similarity=0.444 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHhhhcc
Q psy4580 51 EQKLKCVTNRINQLEEVVDLK 71 (72)
Q Consensus 51 ~~kl~~~~~~~~q~~~~~~~~ 71 (72)
.+..++..+|++.||.++|-.
T Consensus 48 ~~~a~rm~eRI~tLE~ILdae 68 (75)
T PF06667_consen 48 YEQAERMEERIETLERILDAE 68 (75)
T ss_pred HHHHHHHHHHHHHHHHHHcCC
Confidence 345667799999999999854
No 28
>KOG0243|consensus
Probab=36.24 E-value=3.2e+02 Score=25.17 Aligned_cols=66 Identities=21% Similarity=0.322 Sum_probs=40.0
Q ss_pred hhhhhHHhHHHHHHHHhhhhhhhh-------HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Q psy4580 4 KLEERERDIKDLKILLRSKQEEIG-------EISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQLEEVVD 69 (72)
Q Consensus 4 KLE~RE~~IkELKkaLK~K~eEls-------Em~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~~~~~ 69 (72)
+|+..+..|-.+++-++.=++-+- ...=+++.++++|.+...+-...-..++.....|.-.|++++
T Consensus 449 ~ieele~el~~~~~~l~~~~e~~~~~~~~~~~l~~~~~~~k~~L~~~~~el~~~~ee~~~~~~~l~~~e~ii~ 521 (1041)
T KOG0243|consen 449 QIEELEEELENLEKQLKDLTELYMNQLEIKELLKEEKEKLKSKLQNKNKELESLKEELQQAKATLKEEEEIIS 521 (1041)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444333 566678888888888888777666666655555565555554
No 29
>PLN02281 chlorophyllide a oxygenase
Probab=34.95 E-value=1.1e+02 Score=25.89 Aligned_cols=44 Identities=25% Similarity=0.444 Sum_probs=33.5
Q ss_pred HHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Q psy4580 12 IKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQLEEVVD 69 (72)
Q Consensus 12 IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~~~~~ 69 (72)
|--||+.|-.=|||++.++-..-|-|.+.+++ ...|-|||..|.
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~ 166 (536)
T PLN02281 123 IGTVKKELAGLQEELSKAHQQVHISEARVSTA--------------LDKLAHMEELVN 166 (536)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHH--------------HHHHHHHHHHhh
Confidence 55678888888899988888888888777765 445677887774
No 30
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=34.38 E-value=2.9e+02 Score=23.48 Aligned_cols=9 Identities=56% Similarity=0.829 Sum_probs=4.3
Q ss_pred HHHHHHHHH
Q psy4580 58 TNRINQLEE 66 (72)
Q Consensus 58 ~~~~~q~~~ 66 (72)
..++.+||+
T Consensus 219 ~~ri~~LEe 227 (546)
T PF07888_consen 219 RQRIRELEE 227 (546)
T ss_pred HHHHHHHHH
Confidence 444445544
No 31
>PRK09458 pspB phage shock protein B; Provisional
Probab=32.74 E-value=74 Score=20.46 Aligned_cols=21 Identities=29% Similarity=0.498 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHhhhcc
Q psy4580 51 EQKLKCVTNRINQLEEVVDLK 71 (72)
Q Consensus 51 ~~kl~~~~~~~~q~~~~~~~~ 71 (72)
.+++++..+|+..||.++|--
T Consensus 48 ~~~A~rm~~RI~tLE~ILDae 68 (75)
T PRK09458 48 TEKAERMRERIQALEAILDAE 68 (75)
T ss_pred HHHHHHHHHHHHHHHHHHccc
Confidence 345677799999999999853
No 32
>PRK10698 phage shock protein PspA; Provisional
Probab=32.10 E-value=2e+02 Score=20.86 Aligned_cols=65 Identities=14% Similarity=0.197 Sum_probs=40.1
Q ss_pred hhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhh-----------hHHHHHHHHHHHHHHHHHHHHhh
Q psy4580 4 KLEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIR-----------DKDYQEQKLKCVTNRINQLEEVV 68 (72)
Q Consensus 4 KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~k-----------e~e~~~~kl~~~~~~~~q~~~~~ 68 (72)
.++.-...+..|+..+..=...+.++.-|++.+=-|...|.- +.+.......+.++++.+||--.
T Consensus 107 ~~~~~~~~~~~L~~~l~~L~~ki~eak~k~~~L~aR~~~A~a~~~~~~~~~~~~~~~a~~~f~rmE~ki~~~Ea~a 182 (222)
T PRK10698 107 EVTLVDETLARMKKEIGELENKLSETRARQQALMLRHQAASSSRDVRRQLDSGKLDEAMARFESFERRIDQMEAEA 182 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHHHHHH
Confidence 345556666667766666666777777777776655544432 44455556666677777776543
No 33
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=32.09 E-value=2.9e+02 Score=22.76 Aligned_cols=34 Identities=15% Similarity=0.256 Sum_probs=12.6
Q ss_pred HHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHh
Q psy4580 9 ERDIKDLKILLRSKQEEIGEISVRKDLAESKLAN 42 (72)
Q Consensus 9 E~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~ 42 (72)
+++|..+..+|+.=+.++.+.+=+++-+++++..
T Consensus 72 e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~ 105 (420)
T COG4942 72 ETEIASLEAQLIETADDLKKLRKQIADLNARLNA 105 (420)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHH
Confidence 3333333333333333333333333333333333
No 34
>KOG3091|consensus
Probab=31.10 E-value=2.7e+02 Score=23.63 Aligned_cols=54 Identities=17% Similarity=0.276 Sum_probs=46.1
Q ss_pred HHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH
Q psy4580 13 KDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQLEE 66 (72)
Q Consensus 13 kELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~~ 66 (72)
++|+.-+|.--+++-.-++|++-..-++..+++...+.+-|+-+--+|.-.|+.
T Consensus 337 ~dL~~R~K~Q~q~~~~~r~ri~~i~e~v~eLqk~~ad~~~KI~~~k~r~~~Ls~ 390 (508)
T KOG3091|consen 337 EDLRQRLKVQDQEVKQHRIRINAIGERVTELQKHHADAVAKIEEAKNRHVELSH 390 (508)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999888888888777666555543
No 35
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=30.62 E-value=2.7e+02 Score=21.96 Aligned_cols=55 Identities=24% Similarity=0.262 Sum_probs=25.6
Q ss_pred hHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhh
Q psy4580 11 DIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQLEEVV 68 (72)
Q Consensus 11 ~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~~~~ 68 (72)
+|++..-.+|.|.+|.-.- +.-+=+.|+....+.++--+++++..-...|||+..
T Consensus 132 d~ke~~ee~kekl~E~~~E---keeL~~eleele~e~ee~~erlk~le~E~s~LeE~~ 186 (290)
T COG4026 132 DLKEDYEELKEKLEELQKE---KEELLKELEELEAEYEEVQERLKRLEVENSRLEEML 186 (290)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666666666664443221 112223344444444444444555555555555443
No 36
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=30.15 E-value=1.8e+02 Score=24.38 Aligned_cols=25 Identities=16% Similarity=0.218 Sum_probs=15.9
Q ss_pred hhhhHHHHHHHHHHHHHHhhhhhHH
Q psy4580 24 EEIGEISVRKDLAESKLANAIRDKD 48 (72)
Q Consensus 24 eElsEm~VR~~L~EKKL~~a~ke~e 48 (72)
--+.+++.+..=+|++|+....+.+
T Consensus 69 SALteqQ~kasELEKqLaaLrqElq 93 (475)
T PRK13729 69 HATTEMQVTAAQMQKQYEEIRRELD 93 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666666667777777665554
No 37
>KOG4010|consensus
Probab=29.05 E-value=78 Score=23.96 Aligned_cols=36 Identities=22% Similarity=0.390 Sum_probs=31.5
Q ss_pred hhhhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHH
Q psy4580 2 KSKLEERERDIKDLKILLRSKQEEIGEISVRKDLAE 37 (72)
Q Consensus 2 ~~KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~E 37 (72)
+..|-.-|.+|--||--|-.|+-+.+|+..+.||.-
T Consensus 50 r~EL~kvEeEI~TLrqVLaAKerH~~ELKRKLGlt~ 85 (208)
T KOG4010|consen 50 RTELAKVEEEIVTLRQVLAAKERHAAELKRKLGLTV 85 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcch
Confidence 456777789999999999999999999999999854
No 38
>KOG4552|consensus
Probab=29.02 E-value=43 Score=26.07 Aligned_cols=23 Identities=26% Similarity=0.497 Sum_probs=18.5
Q ss_pred ChhhhhhhHHhHHHHHHHHhhhh
Q psy4580 1 MKSKLEERERDIKDLKILLRSKQ 23 (72)
Q Consensus 1 ~~~KLE~RE~~IkELKkaLK~K~ 23 (72)
|+++.|.|+.+|..|.+.||.-.
T Consensus 79 Lea~VEkrD~~IQqLqk~LK~aE 101 (272)
T KOG4552|consen 79 LEAHVEKRDEVIQQLQKNLKSAE 101 (272)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHH
Confidence 45778899999999999988643
No 39
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=28.76 E-value=1.7e+02 Score=19.06 Aligned_cols=35 Identities=17% Similarity=0.266 Sum_probs=15.8
Q ss_pred HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHh
Q psy4580 33 KDLAESKLANAIRDKDYQEQKLKCVTNRINQLEEV 67 (72)
Q Consensus 33 ~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~~~ 67 (72)
+.++++|++.+....+.--+.+....+.++++..+
T Consensus 96 ~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~ 130 (140)
T PRK03947 96 IEILDKRKEELEKALEKLEEALQKLASRIAQLAQE 130 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444444444444433
No 40
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=28.46 E-value=1.6e+02 Score=18.71 Aligned_cols=37 Identities=14% Similarity=0.246 Sum_probs=22.0
Q ss_pred HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Q psy4580 33 KDLAESKLANAIRDKDYQEQKLKCVTNRINQLEEVVD 69 (72)
Q Consensus 33 ~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~~~~~ 69 (72)
++++++|+..+....+.--..+....+.++++..+++
T Consensus 88 ~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~i~~~l~ 124 (126)
T TIGR00293 88 IEFLKKRIEELEKAIEKLQEALAELASRAQQLEQEAQ 124 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4556666666666655555555666666666665543
No 41
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=28.18 E-value=2.9e+02 Score=23.34 Aligned_cols=10 Identities=30% Similarity=0.577 Sum_probs=4.1
Q ss_pred HHHHHHHHhh
Q psy4580 59 NRINQLEEVV 68 (72)
Q Consensus 59 ~~~~q~~~~~ 68 (72)
+-+.+|+.+|
T Consensus 394 ~ni~kL~~~v 403 (594)
T PF05667_consen 394 ENIAKLQALV 403 (594)
T ss_pred HHHHHHHHHH
Confidence 3344444443
No 42
>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition. Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.
Probab=27.15 E-value=2.4e+02 Score=21.95 Aligned_cols=37 Identities=27% Similarity=0.351 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHH
Q psy4580 29 ISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQLE 65 (72)
Q Consensus 29 m~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~ 65 (72)
++-|++=+|.+++.+....+.-.+.++....++..++
T Consensus 142 l~~Ri~e~Eeris~lEd~~~~i~~~~~~~~k~i~~l~ 178 (370)
T PF02994_consen 142 LNSRIDELEERISELEDRIEEIEQAIKELEKRIKKLE 178 (370)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 3445666666666665555554444444444554444
No 43
>PF08912 Rho_Binding: Rho Binding; InterPro: IPR015008 Rho is responsible for the recognition and binding of Rho binding domain-containing proteins (such as ROCK) to Rho, resulting in activation of the GTPase which in turn modulates the phosphorylation of various signalling proteins. This domain is within an amphipathic alpha-helical coiled-coil and interacts with Rho through predominantly hydrophobic interactions []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0000910 cytokinesis, 0006468 protein phosphorylation; PDB: 1UIX_A 1S1C_X.
Probab=26.52 E-value=1.8e+02 Score=18.45 Aligned_cols=12 Identities=25% Similarity=0.639 Sum_probs=7.9
Q ss_pred HHHHHHHHHhhh
Q psy4580 58 TNRINQLEEVVD 69 (72)
Q Consensus 58 ~~~~~q~~~~~~ 69 (72)
.++.|-|=||..
T Consensus 55 ~QAVNKLAEIMN 66 (69)
T PF08912_consen 55 QQAVNKLAEIMN 66 (69)
T ss_dssp HHHHHHHHHHHC
T ss_pred HHHHHHHHHHHc
Confidence 667777766654
No 44
>PRK04863 mukB cell division protein MukB; Provisional
Probab=26.25 E-value=5.5e+02 Score=24.28 Aligned_cols=17 Identities=24% Similarity=0.290 Sum_probs=6.4
Q ss_pred hHHHHHHHHHHHHHHhh
Q psy4580 27 GEISVRKDLAESKLANA 43 (72)
Q Consensus 27 sEm~VR~~L~EKKL~~a 43 (72)
.+..-+..-++..+..+
T Consensus 379 eeleeEleelEeeLeeL 395 (1486)
T PRK04863 379 EENEARAEAAEEEVDEL 395 (1486)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333333333333333
No 45
>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system [].
Probab=26.24 E-value=1.8e+02 Score=18.47 Aligned_cols=24 Identities=17% Similarity=0.274 Sum_probs=14.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhh
Q psy4580 46 DKDYQEQKLKCVTNRINQLEEVVD 69 (72)
Q Consensus 46 e~e~~~~kl~~~~~~~~q~~~~~~ 69 (72)
.-...++++....+.+..||.+|+
T Consensus 60 ~l~~~l~~Id~Ie~~V~~LE~~v~ 83 (99)
T PF10046_consen 60 ELQPYLQQIDQIEEQVTELEQTVY 83 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445556666667777777664
No 46
>PF08461 HTH_12: Ribonuclease R winged-helix domain; InterPro: IPR013668 This domain is found at the amino terminus of Ribonuclease R and a number of presumed transcriptional regulatory proteins from archaea.
Probab=25.62 E-value=88 Score=18.63 Aligned_cols=23 Identities=39% Similarity=0.514 Sum_probs=18.6
Q ss_pred HHHHHHHhhhhhhhhHHHHHHHH
Q psy4580 13 KDLKILLRSKQEEIGEISVRKDL 35 (72)
Q Consensus 13 kELKkaLK~K~eElsEm~VR~~L 35 (72)
++|...|+..+.++|+..||.-|
T Consensus 17 ~~l~~~L~~~g~~~se~avRrrL 39 (66)
T PF08461_consen 17 KQLAEELKLRGEELSEEAVRRRL 39 (66)
T ss_pred HHHHHHHHhcChhhhHHHHHHHH
Confidence 56788889999999888888654
No 47
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=25.55 E-value=1.3e+02 Score=23.78 Aligned_cols=55 Identities=27% Similarity=0.308 Sum_probs=26.2
Q ss_pred hhhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH
Q psy4580 3 SKLEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQLEE 66 (72)
Q Consensus 3 ~KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~~ 66 (72)
.+|.+-.-||+=||+.+.--.-.-..+..|... ++.+..|..+.......+|||.
T Consensus 93 qkl~E~qGD~KlLR~~la~~r~~~~~~~~~~~~---------~ere~lV~qLEk~~~q~~qLe~ 147 (319)
T PF09789_consen 93 QKLNEAQGDIKLLREKLARQRVGDEGIGARHFP---------HEREDLVEQLEKLREQIEQLER 147 (319)
T ss_pred HHHHHHhchHHHHHHHHHhhhhhhccccccccc---------hHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555555444332222233333322 5555556666555566666653
No 48
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=24.50 E-value=3.6e+02 Score=21.31 Aligned_cols=63 Identities=17% Similarity=0.252 Sum_probs=40.4
Q ss_pred hhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Q psy4580 4 KLEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQLEEVVD 69 (72)
Q Consensus 4 KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~~~~~ 69 (72)
||+.||.-|-. .+..-..++...+.+..=+..++..++.....+...+.+..++|+|.-..++
T Consensus 256 kI~sREk~iN~---qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~IseeLe~vK~eme 318 (359)
T PF10498_consen 256 KIESREKYINN---QLEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEISEELEQVKQEME 318 (359)
T ss_pred HHHHHHHHHHH---HhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555544432 4444445566666666666777888888888888888888777777654443
No 49
>PF05250 UPF0193: Uncharacterised protein family (UPF0193); InterPro: IPR007914 This family of proteins is functionally uncharacterised.
Probab=24.13 E-value=2.4e+02 Score=21.02 Aligned_cols=41 Identities=22% Similarity=0.434 Sum_probs=33.1
Q ss_pred hhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHh
Q psy4580 26 IGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRINQLEEV 67 (72)
Q Consensus 26 lsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~~~ 67 (72)
+.|++=|.++++ -++.+|.+..++..=....-++|++||.+
T Consensus 157 v~EI~ER~efL~-eMe~LG~gk~yr~~I~~EIsqrlrele~l 197 (212)
T PF05250_consen 157 VQEIEERREFLA-EMEALGQGKKYRGIILTEISQRLRELEKL 197 (212)
T ss_pred HHHHHHHHHHHH-HHHHcCCchhHHHHHHHHHHHHHHHHHHH
Confidence 456777888886 47888888888888888889999999875
No 50
>PF08232 Striatin: Striatin family; InterPro: IPR013258 This domain is associated with the N terminus of striatin. Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (IPR001680 from INTERPRO) repeat domain []. It acts as a scaffold protein [] and is involved in signalling pathways [, ].
Probab=23.79 E-value=1.9e+02 Score=19.49 Aligned_cols=27 Identities=22% Similarity=0.188 Sum_probs=20.8
Q ss_pred hhhHHHHHHHHHH---HHHHhhhhhHHHHH
Q psy4580 25 EIGEISVRKDLAE---SKLANAIRDKDYQE 51 (72)
Q Consensus 25 ElsEm~VR~~L~E---KKL~~a~ke~e~~~ 51 (72)
|-+||+-|+..+| +.++++..|.-.++
T Consensus 26 ERaEmkarIa~LEGE~r~~e~l~~dL~rrI 55 (134)
T PF08232_consen 26 ERAEMKARIAFLEGERRGQENLKKDLKRRI 55 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6689999999999 67777777775543
No 51
>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans. Its function is unknown.
Probab=23.06 E-value=3.6e+02 Score=21.82 Aligned_cols=45 Identities=24% Similarity=0.316 Sum_probs=24.5
Q ss_pred hhhhHHHHHHHHHHHHHHhh----hhhHHHHHHHHHHHHHHHHHHHHhh
Q psy4580 24 EEIGEISVRKDLAESKLANA----IRDKDYQEQKLKCVTNRINQLEEVV 68 (72)
Q Consensus 24 eElsEm~VR~~L~EKKL~~a----~ke~e~~~~kl~~~~~~~~q~~~~~ 68 (72)
+|+.++.-....++..++.+ .+|.....+.++..--|.+.||+.|
T Consensus 219 ~el~eik~~~~~L~~~~e~Lk~~~~~e~~~~~~~LqEEr~R~erLEeql 267 (395)
T PF10267_consen 219 EELREIKESQSRLEESIEKLKEQYQREYQFILEALQEERYRYERLEEQL 267 (395)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 44555555555555444433 3355566666666666666666654
No 52
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=23.01 E-value=3.6e+02 Score=20.79 Aligned_cols=32 Identities=16% Similarity=0.111 Sum_probs=14.3
Q ss_pred HHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHh
Q psy4580 36 AESKLANAIRDKDYQEQKLKCVTNRINQLEEV 67 (72)
Q Consensus 36 ~EKKL~~a~ke~e~~~~kl~~~~~~~~q~~~~ 67 (72)
++..|+.....-+....+.+.....|+.+|.+
T Consensus 230 ~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae~~ 261 (312)
T smart00787 230 LEEELQELESKIEDLTNKKSELNTEIAEAEKK 261 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444444444443
No 53
>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma. Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].
Probab=22.86 E-value=1.2e+02 Score=21.97 Aligned_cols=36 Identities=22% Similarity=0.425 Sum_probs=30.3
Q ss_pred hhhhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHH
Q psy4580 2 KSKLEERERDIKDLKILLRSKQEEIGEISVRKDLAE 37 (72)
Q Consensus 2 ~~KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~E 37 (72)
+..|-.-|.+|.-||-.|-.|.-..++..-++|+..
T Consensus 35 r~EL~KvEeEI~TLrqvL~aKer~~~eLKrkLGit~ 70 (162)
T PF04201_consen 35 RSELAKVEEEIQTLRQVLAAKERHCAELKRKLGITP 70 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHCCch
Confidence 345667788999999999999999999998887765
No 54
>PF13874 Nup54: Nucleoporin complex subunit 54; PDB: 3T97_B.
Probab=22.81 E-value=2.4e+02 Score=18.82 Aligned_cols=48 Identities=23% Similarity=0.259 Sum_probs=23.0
Q ss_pred HHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHH
Q psy4580 13 KDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNR 60 (72)
Q Consensus 13 kELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~ 60 (72)
.+|+.-++.-.+++..++.+.+-+-.+++.+.+..-....++...-.+
T Consensus 33 ~dL~~R~~~Q~~~~~~~~~~l~~i~~~l~~L~~~~~~~~~rl~~~r~r 80 (141)
T PF13874_consen 33 EDLKKRVEAQEEEIAQHRERLKEINDKLEELQKHDLETSARLEEARRR 80 (141)
T ss_dssp -------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 356666666677888888888888888877765555554555444333
No 55
>PF02841 GBP_C: Guanylate-binding protein, C-terminal domain; InterPro: IPR003191 Guanylate-binding protein is a GTPase that is induced by interferon (IFN)-gamma. GTPases induced by IFN-gamma are key to the protective immunity against microbial and viral pathogens. These GTPases are classified into three groups: the small 47-kd GTPases, the Mx proteins, and the large 65- to 67-kd GTPases. Guanylate-binding proteins (GBP) fall into the last class. In humans, there are seven GBPs (hGBP1-7) []. Structurally, hGBP1 consists of two domains: a compact globular N-terminal domain harbouring the GTPase function (IPR015894 from INTERPRO), and an alpha-helical finger-like C-terminal domain. Human GBP1 is secreted from cells without the need of a leader peptide, and has been shown to exhibit antiviral activity against Vesicular stomatitis virus and Encephalomyocarditis virus, as well as being able to regulate the inhibition of proliferation and invasion of endothelial cells in response to IFN-gamma [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1DG3_A 2D4H_A 2B8W_B 2B92_A 2BC9_A 1F5N_A.
Probab=22.77 E-value=3.2e+02 Score=20.18 Aligned_cols=37 Identities=24% Similarity=0.230 Sum_probs=22.1
Q ss_pred hHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhh
Q psy4580 8 RERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAI 44 (72)
Q Consensus 8 RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ 44 (72)
-+..|....++|..+..++.+...|...+++......
T Consensus 188 ~~~~ilq~d~~L~~~ek~~~~~~~k~e~~e~e~~~l~ 224 (297)
T PF02841_consen 188 MENSILQADQQLTEKEKEIEEEQAKAEAAEKEKEKLE 224 (297)
T ss_dssp HHHHHHHH-TTS-HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666667777777777777777777765444433
No 56
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=22.68 E-value=2.4e+02 Score=21.88 Aligned_cols=29 Identities=31% Similarity=0.520 Sum_probs=13.9
Q ss_pred hhhhHHhHHHHHHHHhhhhhhhhHHHHHH
Q psy4580 5 LEERERDIKDLKILLRSKQEEIGEISVRK 33 (72)
Q Consensus 5 LE~RE~~IkELKkaLK~K~eElsEm~VR~ 33 (72)
|+....+...+.-.|+.+..++++++-|+
T Consensus 202 l~~~~~ELe~~~EeL~~~Eke~~e~~~~i 230 (269)
T PF05278_consen 202 LELKKEELEELEEELKQKEKEVKEIKERI 230 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444445555555555554444
No 57
>PHA02562 46 endonuclease subunit; Provisional
Probab=22.42 E-value=3.8e+02 Score=20.86 Aligned_cols=35 Identities=6% Similarity=0.101 Sum_probs=14.0
Q ss_pred HHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhH
Q psy4580 13 KDLKILLRSKQEEIGEISVRKDLAESKLANAIRDK 47 (72)
Q Consensus 13 kELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~ 47 (72)
.+++..+......+++..-+..-++..++.+....
T Consensus 340 ~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~~~~ 374 (562)
T PHA02562 340 LELKNKISTNKQSLITLVDKAKKVKAAIEELQAEF 374 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 33333344433444443333344444444443333
No 58
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=22.34 E-value=2e+02 Score=25.16 Aligned_cols=43 Identities=21% Similarity=0.304 Sum_probs=27.0
Q ss_pred hhhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHH--HHHHhhhh
Q psy4580 3 SKLEERERDIKDLKILLRSKQEEIGEISVRKDLAE--SKLANAIR 45 (72)
Q Consensus 3 ~KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~E--KKL~~a~k 45 (72)
.+++.++..|..|++.|..+...+.+..-+..-+. ++|+-.++
T Consensus 474 rei~~~~~~I~~L~~~L~e~~~~ve~L~~~l~~l~k~~~lE~sG~ 518 (652)
T COG2433 474 REIRARDRRIERLEKELEEKKKRVEELERKLAELRKMRKLELSGK 518 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC
Confidence 45666777777777777777766666666666555 44444433
No 59
>PF14772 NYD-SP28: Sperm tail
Probab=22.33 E-value=2e+02 Score=18.07 Aligned_cols=25 Identities=20% Similarity=0.355 Sum_probs=19.3
Q ss_pred hhhhHHhHHHHHHHHhhhhhhhhHH
Q psy4580 5 LEERERDIKDLKILLRSKQEEIGEI 29 (72)
Q Consensus 5 LE~RE~~IkELKkaLK~K~eElsEm 29 (72)
+..|+..|.+|...|+.+.++...+
T Consensus 71 i~~Kd~lI~~L~~eL~~~deqy~~~ 95 (104)
T PF14772_consen 71 IDRKDALIKELQQELKEADEQYVKA 95 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5678888888888888887766544
No 60
>PF12041 DELLA: Transcriptional regulator DELLA protein N terminal; InterPro: IPR021914 Gibberellins are plant hormones which have great impact on growth signalling. DELLA proteins are transcriptional regulators of growth related proteins which are downregulated when gibberellins bind to their receptor GID1. GID1 forms a complex with DELLA proteins and signals them towards 26S proteasome. The N-terminal of DELLA proteins contains conserved DELLA and VHYNP motifs which are important for GID1 binding and proteolysis of the DELLA proteins [].; PDB: 2ZSH_B 2ZSI_B.
Probab=22.22 E-value=49 Score=21.31 Aligned_cols=20 Identities=25% Similarity=0.436 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q psy4580 50 QEQKLKCVTNRINQLEEVVD 69 (72)
Q Consensus 50 ~~~kl~~~~~~~~q~~~~~~ 69 (72)
|...+...-++|+|||.|..
T Consensus 12 rsSdmadVAQkLEqLE~vmg 31 (73)
T PF12041_consen 12 RSSDMADVAQKLEQLEMVMG 31 (73)
T ss_dssp BGGGHHHHHHHHHHHHHHHT
T ss_pred cchHHHHHHHHHHHHHHHHc
Confidence 33444556788999998864
No 61
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=22.01 E-value=3.1e+02 Score=19.64 Aligned_cols=58 Identities=16% Similarity=0.315 Sum_probs=32.7
Q ss_pred hhhhhHHhHHHHHHHHhhh---hhhhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHH
Q psy4580 4 KLEERERDIKDLKILLRSK---QEEIGEISVRKDLAESKLANAIRDKDYQEQKLKCVTNRI 61 (72)
Q Consensus 4 KLE~RE~~IkELKkaLK~K---~eElsEm~VR~~L~EKKL~~a~ke~e~~~~kl~~~~~~~ 61 (72)
-|..-+.++.+|++.|+.= --.+..+..|...+++.|.++..+++.-.++......+-
T Consensus 63 pL~~a~~e~~eL~k~L~~y~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~Er 123 (201)
T PF13851_consen 63 PLKKAEEEVEELRKQLKNYEKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKLEQER 123 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556666666666543 224445666666666777766666666555554443333
No 62
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 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. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=21.76 E-value=1.7e+02 Score=18.15 Aligned_cols=29 Identities=28% Similarity=0.485 Sum_probs=21.3
Q ss_pred hhhhhhHHhHHHHHHHHhhhhhhhhHHHH
Q psy4580 3 SKLEERERDIKDLKILLRSKQEEIGEISV 31 (72)
Q Consensus 3 ~KLE~RE~~IkELKkaLK~K~eElsEm~V 31 (72)
..+|+.+..|.+|+..+..|.+=+...+-
T Consensus 52 ~s~eeq~~~i~~Le~~i~~k~~~L~~~~~ 80 (83)
T PF07544_consen 52 RSVEEQEEEIEELEEQIRKKREVLQKFKE 80 (83)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45678888888888888888776665543
No 63
>PF12777 MT: Microtubule-binding stalk of dynein motor; InterPro: IPR024743 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules (D1-6), of which four correspond to the ATP binding sites with P-loop signatures, and two are modules in which the P loop has been lost in evolution. This domain occurs between D4 and D5 and includes the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [].; PDB: 3VKH_A 3VKG_A 3ERR_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 2RR7_A.
Probab=21.64 E-value=3.7e+02 Score=20.42 Aligned_cols=32 Identities=28% Similarity=0.431 Sum_probs=26.9
Q ss_pred hhhhhhHHhHHHHHHHHhhhhhhhhHHHHHHH
Q psy4580 3 SKLEERERDIKDLKILLRSKQEEIGEISVRKD 34 (72)
Q Consensus 3 ~KLE~RE~~IkELKkaLK~K~eElsEm~VR~~ 34 (72)
.||.+=...|.+|+..|..++.++.+++..-+
T Consensus 8 ~KL~et~~~V~~m~~~L~~~~~~L~~k~~e~e 39 (344)
T PF12777_consen 8 DKLKETEEQVEEMQEELEEKQPELEEKQKEAE 39 (344)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47888889999999999999999998876543
No 64
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=20.82 E-value=4.8e+02 Score=21.46 Aligned_cols=40 Identities=18% Similarity=0.240 Sum_probs=19.6
Q ss_pred hhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhh
Q psy4580 4 KLEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANA 43 (72)
Q Consensus 4 KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a 43 (72)
+++.-+..|.++...+..-.++++...-.++-++.++..+
T Consensus 210 ~~~~le~el~~l~~~~e~l~~~i~~l~~ele~a~~~l~~l 249 (650)
T TIGR03185 210 EIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQRSLESL 249 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455555555554444444555554444444444433
No 65
>PF13234 rRNA_proc-arch: rRNA-processing arch domain; PDB: 4A4K_E 4A4Z_A 2XGJ_B 3L9O_A.
Probab=20.78 E-value=2.1e+02 Score=20.61 Aligned_cols=28 Identities=18% Similarity=0.192 Sum_probs=20.9
Q ss_pred HHhhhhhhhhHHHHHHHHHHHHHHhhhh
Q psy4580 18 LLRSKQEEIGEISVRKDLAESKLANAIR 45 (72)
Q Consensus 18 aLK~K~eElsEm~VR~~L~EKKL~~a~k 45 (72)
.++++..++.+..-|..-+|++|+..+-
T Consensus 208 DmkI~d~~~~e~~~k~~~Le~rl~~~~~ 235 (268)
T PF13234_consen 208 DMKIKDPEFVELVKKIEALEKRLSSHPL 235 (268)
T ss_dssp HH----HHHHHHHHHHHHHHHHHHHSCH
T ss_pred hCCCCcHHHHHHHHHHHHHHHHHHhCCC
Confidence 4678899999999999999999988763
No 66
>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length. The function of this family is unknown.; GO: 0005198 structural molecule activity
Probab=20.50 E-value=3e+02 Score=19.00 Aligned_cols=44 Identities=23% Similarity=0.335 Sum_probs=22.6
Q ss_pred hhhhhhHHhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHhhhhhHHHH
Q psy4580 3 SKLEERERDIKDLKILLRSKQEEIGEISVRKDLAESKLANAIRDKDYQ 50 (72)
Q Consensus 3 ~KLE~RE~~IkELKkaLK~K~eElsEm~VR~~L~EKKL~~a~ke~e~~ 50 (72)
..|.+++..|+.|++ ....+.+++-.+.=+..++..+..+++..
T Consensus 34 ~ql~~~d~~i~~Lk~----~~~d~eeLk~~i~~lq~~~~~~~~~~e~~ 77 (155)
T PF06810_consen 34 TQLKEADKQIKDLKK----SAKDNEELKKQIEELQAKNKTAKEEYEAK 77 (155)
T ss_pred HHHHHHHHHHHHHHh----ccCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346667777777766 23334444444444445554444444443
No 67
>COG1422 Predicted membrane protein [Function unknown]
Probab=20.41 E-value=2.9e+02 Score=20.67 Aligned_cols=35 Identities=20% Similarity=0.196 Sum_probs=16.2
Q ss_pred hhhhhHHHHHHHHHHHHHHhhhhhHHH-HHHHHHHH
Q psy4580 23 QEEIGEISVRKDLAESKLANAIRDKDY-QEQKLKCV 57 (72)
Q Consensus 23 ~eElsEm~VR~~L~EKKL~~a~ke~e~-~~~kl~~~ 57 (72)
+|.+++++-+-.-.-++...|++.+|. .+.|+|.+
T Consensus 71 ~ekm~~~qk~m~efq~e~~eA~~~~d~~~lkkLq~~ 106 (201)
T COG1422 71 QEKMKELQKMMKEFQKEFREAQESGDMKKLKKLQEK 106 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence 444455544444444555555554333 34444444
No 68
>PF12844 HTH_19: Helix-turn-helix domain; PDB: 3LIS_B 3LFP_A 2XIU_B 2GZU_B 2XJ3_A 1UTX_A 2XI8_B 3F6W_C 3EUS_B.
Probab=20.31 E-value=77 Score=17.53 Aligned_cols=18 Identities=22% Similarity=0.335 Sum_probs=13.4
Q ss_pred hHHHHHHHHhhhhhhhhH
Q psy4580 11 DIKDLKILLRSKQEEIGE 28 (72)
Q Consensus 11 ~IkELKkaLK~K~eElsE 28 (72)
-|+++++.....+.++++
T Consensus 3 ~lk~~r~~~~lt~~~~a~ 20 (64)
T PF12844_consen 3 RLKELREEKGLTQKDLAE 20 (64)
T ss_dssp HHHHHHHHCT--HHHHHH
T ss_pred HHHHHHHHcCCCHHHHHH
Confidence 478888888888888887
Done!