Query psy3837
Match_columns 93
No_of_seqs 22 out of 24
Neff 2.1
Searched_HMMs 46136
Date Fri Aug 16 18:41:47 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3837.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3837hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14197 Cep57_CLD_2: Centroso 96.5 0.031 6.8E-07 36.2 7.7 63 12-79 4-66 (69)
2 PF00038 Filament: Intermediat 93.0 2.3 4.9E-05 31.8 10.1 83 2-84 52-134 (312)
3 PF02520 DUF148: Domain of unk 88.9 5 0.00011 26.5 7.9 67 12-78 18-86 (113)
4 PF05701 WEMBL: Weak chloropla 85.4 16 0.00034 30.6 10.4 76 10-85 115-190 (522)
5 PF02403 Seryl_tRNA_N: Seryl-t 79.6 14 0.00031 23.9 8.2 66 18-83 19-90 (108)
6 cd07596 BAR_SNX The Bin/Amphip 74.6 24 0.00052 24.0 9.1 65 23-87 108-179 (218)
7 PF12685 SpoIIIAH: SpoIIIAH-li 73.9 13 0.00028 27.1 5.7 43 46-88 97-139 (196)
8 PF09325 Vps5: Vps5 C terminal 70.6 35 0.00075 24.1 8.1 64 23-86 126-196 (236)
9 PF09304 Cortex-I_coil: Cortex 68.9 40 0.00087 24.2 8.8 43 26-68 31-73 (107)
10 TIGR00273 iron-sulfur cluster- 67.0 24 0.00053 29.3 6.5 55 33-89 6-62 (432)
11 TIGR00414 serS seryl-tRNA synt 63.5 46 0.001 27.2 7.4 52 32-83 37-92 (418)
12 PF04576 Zein-binding: Zein-bi 63.4 49 0.0011 23.2 8.7 61 27-87 5-65 (94)
13 cd07666 BAR_SNX7 The Bin/Amphi 62.7 34 0.00074 26.7 6.3 46 35-84 149-194 (243)
14 PF08581 Tup_N: Tup N-terminal 61.6 45 0.00098 22.2 6.9 55 33-87 12-66 (79)
15 KOG3119|consensus 60.0 27 0.00058 27.2 5.2 36 42-84 204-239 (269)
16 PRK05431 seryl-tRNA synthetase 59.7 75 0.0016 26.0 8.0 57 27-83 27-89 (425)
17 cd07627 BAR_Vps5p The Bin/Amph 58.5 71 0.0015 23.4 9.2 61 23-83 106-173 (216)
18 COG1340 Uncharacterized archae 58.0 94 0.002 25.5 8.2 59 26-84 42-100 (294)
19 PF05600 DUF773: Protein of un 57.4 1.1E+02 0.0024 26.1 8.8 63 27-89 434-496 (507)
20 PF06810 Phage_GP20: Phage min 54.6 53 0.0012 23.7 5.7 57 30-90 25-81 (155)
21 PLN02320 seryl-tRNA synthetase 51.2 1.1E+02 0.0025 26.4 8.0 28 30-57 98-125 (502)
22 PF12325 TMF_TATA_bd: TATA ele 49.8 90 0.002 22.1 8.0 56 32-87 30-88 (120)
23 KOG0933|consensus 48.7 2.7E+02 0.0059 27.2 10.8 82 3-84 793-881 (1174)
24 PRK01005 V-type ATP synthase s 48.6 1.2E+02 0.0025 23.0 7.9 14 36-49 9-22 (207)
25 COG1340 Uncharacterized archae 48.4 1.5E+02 0.0033 24.3 8.0 54 30-83 25-78 (294)
26 smart00502 BBC B-Box C-termina 48.2 65 0.0014 19.9 7.9 9 76-84 77-85 (127)
27 PLN02678 seryl-tRNA synthetase 47.6 1.7E+02 0.0038 24.7 8.5 33 30-62 38-70 (448)
28 cd00520 RRF Ribosome recycling 46.6 1.1E+02 0.0023 22.5 6.3 45 43-87 123-171 (179)
29 PF07889 DUF1664: Protein of u 45.8 1.1E+02 0.0024 22.0 7.5 40 20-61 26-65 (126)
30 PF08581 Tup_N: Tup N-terminal 43.0 98 0.0021 20.5 8.9 46 38-83 3-48 (79)
31 PF09726 Macoilin: Transmembra 42.0 1.7E+02 0.0038 26.1 7.9 81 11-91 423-515 (697)
32 COG1139 Uncharacterized conser 41.3 1.5E+02 0.0032 26.1 7.2 57 32-88 19-75 (459)
33 PF10157 DUF2365: Uncharacteri 41.2 1.4E+02 0.0031 21.9 7.2 51 30-84 90-143 (149)
34 PF05701 WEMBL: Weak chloropla 40.1 2.3E+02 0.0049 23.9 10.1 70 3-72 33-102 (522)
35 PF09728 Taxilin: Myosin-like 39.7 1.9E+02 0.0042 23.0 10.7 65 6-70 45-127 (309)
36 PF08376 NIT: Nitrate and nitr 38.5 1.3E+02 0.0029 20.7 5.9 21 41-61 30-50 (247)
37 PF06637 PV-1: PV-1 protein (P 37.6 1.1E+02 0.0024 26.7 6.0 54 30-83 261-325 (442)
38 PF15290 Syntaphilin: Golgi-lo 36.5 2E+02 0.0044 24.1 7.1 16 69-84 119-134 (305)
39 COG4372 Uncharacterized protei 36.4 3.1E+02 0.0067 24.4 10.5 70 5-81 89-158 (499)
40 PF03962 Mnd1: Mnd1 family; I 36.1 1.8E+02 0.0039 21.5 7.6 18 67-84 110-127 (188)
41 PF01765 RRF: Ribosome recycli 36.1 1.6E+02 0.0034 20.9 6.9 46 42-87 108-157 (165)
42 PF14988 DUF4515: Domain of un 35.2 2E+02 0.0043 21.8 8.4 57 28-84 18-95 (206)
43 PRK02224 chromosome segregatio 35.0 3E+02 0.0064 23.7 10.2 23 61-83 406-428 (880)
44 PF11853 DUF3373: Protein of u 34.0 45 0.00096 29.0 3.1 21 64-84 28-48 (489)
45 cd08311 Death_p75NR Death doma 33.0 40 0.00087 21.9 2.1 34 15-55 42-76 (77)
46 TIGR03752 conj_TIGR03752 integ 32.4 2E+02 0.0044 25.2 6.7 16 34-49 58-73 (472)
47 PRK07720 fliJ flagellar biosyn 32.2 1.6E+02 0.0035 19.9 7.1 48 37-84 7-54 (146)
48 PF05739 SNARE: SNARE domain; 31.6 1.1E+02 0.0023 17.7 6.2 41 47-87 1-41 (63)
49 PRK11637 AmiB activator; Provi 29.1 3E+02 0.0065 22.0 9.2 21 63-83 99-119 (428)
50 TIGR00496 frr ribosome recycli 27.8 2.5E+02 0.0054 20.7 6.5 45 43-87 118-166 (176)
51 TIGR02473 flagell_FliJ flagell 27.5 1.8E+02 0.0039 18.9 7.1 43 39-81 6-48 (141)
52 COG0172 SerS Seryl-tRNA synthe 27.2 4E+02 0.0087 22.8 9.0 65 18-82 21-90 (429)
53 PF12022 DUF3510: Domain of un 27.2 50 0.0011 22.8 1.9 35 35-69 84-121 (125)
54 KOG0811|consensus 26.8 2.5E+02 0.0055 22.5 6.0 48 41-88 171-218 (269)
55 PTZ00399 cysteinyl-tRNA-synthe 26.6 3.1E+02 0.0067 24.1 6.9 11 28-38 487-497 (651)
56 KOG4571|consensus 26.1 2.6E+02 0.0056 23.2 6.1 39 46-84 248-286 (294)
57 PF01527 HTH_Tnp_1: Transposas 26.1 74 0.0016 18.7 2.3 28 17-44 2-33 (76)
58 PRK04863 mukB cell division pr 26.0 6.4E+02 0.014 24.8 11.1 58 26-83 415-479 (1486)
59 TIGR01147 V_ATP_synt_G vacuola 25.9 2.4E+02 0.0053 19.9 5.8 30 60-89 28-57 (113)
60 TIGR02837 spore_II_R stage II 25.8 2.4E+02 0.0052 21.5 5.5 48 45-92 58-105 (168)
61 PRK04654 sec-independent trans 25.8 3.4E+02 0.0074 21.6 7.7 48 35-83 27-77 (214)
62 cd07664 BAR_SNX2 The Bin/Amphi 25.6 3.1E+02 0.0067 21.0 9.1 61 23-87 124-193 (234)
63 COG1196 Smc Chromosome segrega 24.5 5.6E+02 0.012 23.6 10.9 62 21-82 386-447 (1163)
64 COG1938 Archaeal enzymes of AT 24.4 1.5E+02 0.0033 23.6 4.4 38 51-88 195-232 (244)
65 cd07625 BAR_Vps17p The Bin/Amp 24.4 3.4E+02 0.0074 21.0 8.9 58 23-83 120-187 (230)
66 PF11598 COMP: Cartilage oligo 24.3 1.8E+02 0.0039 17.8 4.2 26 64-89 5-30 (45)
67 cd08812 CARD_RIG-I_like Caspas 24.2 1.5E+02 0.0032 19.3 3.7 38 26-63 36-80 (88)
68 PF00038 Filament: Intermediat 24.0 3.1E+02 0.0067 20.4 8.9 32 36-67 58-89 (312)
69 PRK10404 hypothetical protein; 23.9 2.4E+02 0.0053 19.2 5.6 15 73-87 33-47 (101)
70 cd07623 BAR_SNX1_2 The Bin/Amp 23.8 3.1E+02 0.0067 20.3 9.1 62 23-87 114-183 (224)
71 cd08325 CARD_CASP1-like Caspas 23.7 2.1E+02 0.0046 18.4 4.6 39 26-64 35-77 (83)
72 PF14712 Snapin_Pallidin: Snap 23.2 2E+02 0.0044 18.0 6.7 51 34-84 34-88 (92)
73 PF05929 Phage_GPO: Phage caps 23.1 3.1E+02 0.0068 22.1 5.9 54 34-87 198-255 (276)
74 PRK03100 sec-independent trans 23.0 3E+02 0.0064 20.2 5.3 36 35-71 28-68 (136)
75 PF14738 PaaSYMP: Solute carri 22.9 2.3E+02 0.005 20.8 4.8 8 20-27 87-94 (154)
76 PF14294 DUF4372: Domain of un 22.8 46 0.00099 21.6 1.0 30 19-48 30-66 (76)
77 PF07888 CALCOCO1: Calcium bin 22.2 5.7E+02 0.012 22.8 7.9 38 46-83 318-355 (546)
78 PRK05689 fliJ flagellar biosyn 22.1 2.6E+02 0.0056 18.8 7.3 48 36-83 6-53 (147)
79 cd09243 BRO1_Brox_like Protein 22.0 1.1E+02 0.0024 24.9 3.2 38 35-72 24-61 (353)
80 PF01093 Clusterin: Clusterin; 21.9 4E+02 0.0086 22.9 6.6 31 54-87 41-71 (436)
81 PF09712 PHA_synth_III_E: Poly 21.0 2.2E+02 0.0048 22.5 4.6 38 43-80 250-292 (293)
82 cd08819 CARD_MDA5_2 Caspase ac 21.0 92 0.002 21.5 2.3 36 27-63 39-80 (88)
83 PF05055 DUF677: Protein of un 20.9 4.7E+02 0.01 21.4 7.3 51 34-84 259-312 (336)
84 PF14142 YrzO: YrzO-like prote 20.8 1.8E+02 0.004 18.3 3.4 31 52-82 14-44 (46)
85 cd07665 BAR_SNX1 The Bin/Amphi 20.5 4.1E+02 0.0089 20.6 8.3 30 23-56 124-153 (234)
86 PF05384 DegS: Sensor protein 20.5 3.6E+02 0.0079 19.9 7.8 53 27-79 15-67 (159)
87 KOG1962|consensus 20.3 4.4E+02 0.0095 20.8 7.0 55 34-88 153-210 (216)
88 PRK06851 hypothetical protein; 20.2 5E+02 0.011 21.4 8.5 61 27-87 114-176 (367)
89 PF06881 Elongin_A: RNA polyme 20.2 1.5E+02 0.0032 19.7 3.1 45 18-62 46-90 (109)
90 PF10481 CENP-F_N: Cenp-F N-te 20.1 5.3E+02 0.012 21.7 7.4 55 30-84 65-126 (307)
91 KOG3977|consensus 20.1 3.2E+02 0.0068 22.1 5.3 52 25-83 68-132 (221)
No 1
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=96.47 E-value=0.031 Score=36.22 Aligned_cols=63 Identities=30% Similarity=0.423 Sum_probs=45.2
Q ss_pred HHHHHhhhhhhhhhhhHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHH
Q psy3837 12 EAEVSKRRRDWAFSERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVL 79 (93)
Q Consensus 12 eaevaKrrRDWAfsERdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~l 79 (93)
|++++-=|-+|....|.-=+. -..-..|++|||.|++.|..|....++++...+-+.+||+..
T Consensus 4 ea~~~~Lr~rLd~~~rk~~~~-----~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~el~~~ 66 (69)
T PF14197_consen 4 EAEIATLRNRLDSLTRKNSVH-----EIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKELEEL 66 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345555555555444443333 356678999999999999999999998887777777776554
No 2
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=92.97 E-value=2.3 Score=31.75 Aligned_cols=83 Identities=18% Similarity=0.181 Sum_probs=68.6
Q ss_pred hhhHHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHH
Q psy3837 2 ISVCCEESIQEAEVSKRRRDWAFSERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKE 81 (93)
Q Consensus 2 ~~~el~ea~qeaevaKrrRDWAfsERdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKE 81 (93)
|..|+..+.+..+....-+.-...+++++-.+-+-++.=|+.....|..+-+++...-.+.|+....+.++..++..|++
T Consensus 52 ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~e 131 (312)
T PF00038_consen 52 YEEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQSLKE 131 (312)
T ss_dssp HHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHHH
Confidence 66777777777777777777788888888888888888888888889998888888888888888888888888888888
Q ss_pred HHH
Q psy3837 82 KME 84 (93)
Q Consensus 82 k~e 84 (93)
.|.
T Consensus 132 El~ 134 (312)
T PF00038_consen 132 ELE 134 (312)
T ss_dssp HHH
T ss_pred HHH
Confidence 774
No 3
>PF02520 DUF148: Domain of unknown function DUF148; InterPro: IPR003677 This entry represents the domain DUF148, which has no known function.
Probab=88.90 E-value=5 Score=26.53 Aligned_cols=67 Identities=19% Similarity=0.308 Sum_probs=55.3
Q ss_pred HHHHHhhhhhhhh--hhhHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHH
Q psy3837 12 EAEVSKRRRDWAF--SERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKV 78 (93)
Q Consensus 12 eaevaKrrRDWAf--sERdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~ 78 (93)
-+|.-.....||= +-.+.+-.-...+.+..+.+++....+|+.|..+......|..-++.+..+..+
T Consensus 18 ~~e~~~~l~~Wa~~~~v~~~~~~f~~~~~~~~~~~~~~~~~vi~~L~~a~~~l~~I~~n~~lT~~q~~~ 86 (113)
T PF02520_consen 18 KAEIEEQLDEWAEKYGVQDQYNEFKAQVQAQKEEVRKNVTAVISNLSSAFAKLSAILDNKSLTRQQQQE 86 (113)
T ss_pred HHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcccCHHHHHH
Confidence 4567777889985 456777778888999999999999999999999999999999887766555443
No 4
>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function. Several sequences in this family are described as being myosin heavy chain-like.
Probab=85.42 E-value=16 Score=30.65 Aligned_cols=76 Identities=25% Similarity=0.304 Sum_probs=66.5
Q ss_pred HHHHHHHhhhhhhhhhhhHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHH
Q psy3837 10 IQEAEVSKRRRDWAFSERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKMEA 85 (93)
Q Consensus 10 ~qeaevaKrrRDWAfsERdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~ 85 (93)
..+.++++-+-.=++++=+...+|=..++.=++.+.-+++.|++...+|.+.+....++.++++.||..+|+-++.
T Consensus 115 k~ele~~~~q~~~~~~eL~~~k~EL~~lr~e~~~~~~~k~~A~~~aeea~~~a~~~~~kve~L~~Ei~~lke~l~~ 190 (522)
T PF05701_consen 115 KAELESAREQYASAVAELDSVKQELEKLRQELASALDAKNAALKQAEEAVSAAEENEEKVEELSKEIIALKESLES 190 (522)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556777777777888888888888888888888888999999999999999999999999999999999998864
No 5
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=79.58 E-value=14 Score=23.94 Aligned_cols=66 Identities=23% Similarity=0.435 Sum_probs=42.9
Q ss_pred hhhhhhhhhhHHHH---HHHHhHHHHHHHHHHHHhHHHHHHHHHhhh---hhHHHHhhhHHHHHHHHHHHHH
Q psy3837 18 RRRDWAFSERDKIV---LERESIRTLCDKLRKERDRAVSDLAEALRD---SDNIKKQKNETSKELKVLKEKM 83 (93)
Q Consensus 18 rrRDWAfsERdKIV---~EReSirtLCd~LRkERD~AvS~la~AiRd---~Ddi~kqk~ea~kel~~lKEk~ 83 (93)
.+|-...+-=|.|+ .+|-++.+=-+.||.+|-..-..++.+.+. .+.++.+-....+++..+.+++
T Consensus 19 ~~R~~~~~~vd~i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~~~~~~l~~e~~~lk~~i~~le~~~ 90 (108)
T PF02403_consen 19 KKRGGDEEDVDEIIELDQERRELQQELEELRAERNELSKEIGKLKKAGEDAEELKAEVKELKEEIKELEEQL 90 (108)
T ss_dssp HHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTTCCTHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHcCCCHhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHHHHHH
Confidence 33433434445554 567777777899999999998899988885 4455555555555555555444
No 6
>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=74.63 E-value=24 Score=24.01 Aligned_cols=65 Identities=11% Similarity=0.257 Sum_probs=39.7
Q ss_pred hhhhhHHHHHHHHhHHHHHHHHHHHHhHHHH-------HHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHHHH
Q psy3837 23 AFSERDKIVLERESIRTLCDKLRKERDRAVS-------DLAEALRDSDNIKKQKNETSKELKVLKEKMEAQV 87 (93)
Q Consensus 23 AfsERdKIV~EReSirtLCd~LRkERD~AvS-------~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q~ 87 (93)
+|+.|+.++.+-++...-..+.+.+.+++.. ++..+.........+...+....+.+.+.+..++
T Consensus 108 ~l~~R~~~~~~~~~~~~~l~~k~~~~~kl~~~~~~~~~ki~~l~~~i~~~e~~~~~~~~~~~~i~~~~~~El 179 (218)
T cd07596 108 TLDDRADALLTLQSLKKDLASKKAQLEKLKAAPGIKPAKVEELEEELEEAESALEEARKRYEEISERLKEEL 179 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788888888888887777777776555532 2333333344445555555556666665555444
No 7
>PF12685 SpoIIIAH: SpoIIIAH-like protein; InterPro: IPR024232 Stage III sporulation protein AH (SpoIIIAH) is a protein that is involved in forespore engulfment. It forms a channel with SpoIIIAH that is open on the forespore end and closed (or gated) on the mother cell end. This allows sigma-E-directed gene expression in the mother-cell compartment of the sporangium to trigger the activation of sigma-G forespore-specific gene expression by a pathway of intercellular signaling. This family of proteins is found in bacteria, archaea and eukaryotes and so must have a wider function than in sporulation. Proteins in this family are typically between 174 and 223 amino acids in length.; PDB: 3UZ0_A 3TUF_A.
Probab=73.92 E-value=13 Score=27.13 Aligned_cols=43 Identities=28% Similarity=0.499 Sum_probs=31.7
Q ss_pred HHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHHHHH
Q psy3837 46 KERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKMEAQVE 88 (93)
Q Consensus 46 kERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q~e 88 (93)
+.|+..+..|-+.|-+.+--..+|.+|..++-+|.+.++.+..
T Consensus 97 ~~r~~~~e~L~~ii~~~~~s~~~k~~A~~~~~~l~~~~~kE~~ 139 (196)
T PF12685_consen 97 QSRSKQIETLKEIINNENASEEEKKEAQDKLLELTEKMEKEME 139 (196)
T ss_dssp HHHHHHHHHHHHHHT-TTS-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566677778888888777788999999999999887755543
No 8
>PF09325 Vps5: Vps5 C terminal like; InterPro: IPR015404 Vps5 is a sorting nexin that functions in membrane trafficking. This is the C-terminal dimerisation domain [].
Probab=70.64 E-value=35 Score=24.12 Aligned_cols=64 Identities=14% Similarity=0.316 Sum_probs=34.7
Q ss_pred hhhhhHHHHHHHHhHHHHHHHHHHHHhHHHH-------HHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHHH
Q psy3837 23 AFSERDKIVLERESIRTLCDKLRKERDRAVS-------DLAEALRDSDNIKKQKNETSKELKVLKEKMEAQ 86 (93)
Q Consensus 23 AfsERdKIV~EReSirtLCd~LRkERD~AvS-------~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q 86 (93)
+|..|+++..+=+....=.++.+...+++.. ++..+........+..+.+.++.+.+.+.+-..
T Consensus 126 ~l~~R~~~~~~~~~a~~~l~kkk~~~~kl~~~~~~~~~k~~~~~~ei~~~~~~~~~~~~~~~~is~~~k~E 196 (236)
T PF09325_consen 126 ALNRRDKKLIEYQNAEKELQKKKAQLEKLKASGKNRQDKVEQAENEIEEAERRVEQAKDEFEEISENIKKE 196 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677777776665554444444444433332 344445555555555555666666655555443
No 9
>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold). The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.
Probab=68.90 E-value=40 Score=24.18 Aligned_cols=43 Identities=12% Similarity=0.281 Sum_probs=30.7
Q ss_pred hhHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHh
Q psy3837 26 ERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQ 68 (93)
Q Consensus 26 ERdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kq 68 (93)
.++-++.+|+..++.-..|+-+++-.+..+++-=+..+++.++
T Consensus 31 S~~eL~kqkd~L~~~l~~L~~q~~s~~qr~~eLqaki~ea~~~ 73 (107)
T PF09304_consen 31 SQGELAKQKDQLRNALQSLQAQNASRNQRIAELQAKIDEARRN 73 (107)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566789999999999999999988887665444444433333
No 10
>TIGR00273 iron-sulfur cluster-binding protein. Members of this family have a perfect 4Fe-4S binding motif C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or imperfect (the first Cys replaced by Ser) second copy. Members probably bind two 4fe-4S iron-sulfur clusters.
Probab=67.00 E-value=24 Score=29.29 Aligned_cols=55 Identities=25% Similarity=0.399 Sum_probs=44.1
Q ss_pred HHHhHHHHHHHHHHHHhHHHHHHH--HHhhhhhHHHHhhhHHHHHHHHHHHHHHHHHHH
Q psy3837 33 ERESIRTLCDKLRKERDRAVSDLA--EALRDSDNIKKQKNETSKELKVLKEKMEAQVEL 89 (93)
Q Consensus 33 EReSirtLCd~LRkERD~AvS~la--~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q~ek 89 (93)
-|.++....+.+|.-|+.+++++- +++| +.++.-|+.+...|+++-++....+++
T Consensus 6 ~~~~~~~~~~~~~~~r~~~~~~~~~~~~~r--~~~~~ik~~~~~~ld~~l~~~~~~~~~ 62 (432)
T TIGR00273 6 LREALRNAQERLRANRKLLVEELGYWEEWR--ELVKEIKLKVLENLDFYLDQLKENVTQ 62 (432)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCchHHHHH--HHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 377889999999999999999974 5554 456777888888888888888777754
No 11
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=63.55 E-value=46 Score=27.18 Aligned_cols=52 Identities=23% Similarity=0.341 Sum_probs=31.3
Q ss_pred HHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhh----HHHHhhhHHHHHHHHHHHHH
Q psy3837 32 LERESIRTLCDKLRKERDRAVSDLAEALRDSD----NIKKQKNETSKELKVLKEKM 83 (93)
Q Consensus 32 ~EReSirtLCd~LRkERD~AvS~la~AiRd~D----di~kqk~ea~kel~~lKEk~ 83 (93)
.+|-.+.+=-++||.+|-..-.+++......+ .++.+-.++..+|+.+++++
T Consensus 37 ~~~r~~~~~~~~l~~erN~~sk~i~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~ 92 (418)
T TIGR00414 37 DERKKLLSEIEELQAKRNELSKQIGKAKGQKKDKIEEIKKELKELKEELTELSAAL 92 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666777789999999988888876443332 33333344444444444433
No 12
>PF04576 Zein-binding: Zein-binding; InterPro: IPR007656 This is a family of uncharacterised proteins.
Probab=63.40 E-value=49 Score=23.17 Aligned_cols=61 Identities=23% Similarity=0.314 Sum_probs=51.3
Q ss_pred hHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHHHH
Q psy3837 27 RDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKMEAQV 87 (93)
Q Consensus 27 RdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q~ 87 (93)
|.-+-.+|.++..||-.|=+||--|-|---+|+-=---+.+.|..+.=|-..++-.+|.+.
T Consensus 5 r~~v~~er~~~~~L~~ELEeER~AaAsAA~EAMaMI~RLQ~EKAa~~mEA~Qy~Rm~EEk~ 65 (94)
T PF04576_consen 5 RRAVEAERKALAALYAELEEERSAAASAASEAMAMILRLQEEKAAVEMEARQYQRMAEEKA 65 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 5567789999999999999999998888777777777788888888888888887777665
No 13
>cd07666 BAR_SNX7 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 7. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. The specific function of SNX7 is still unknown. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=62.74 E-value=34 Score=26.73 Aligned_cols=46 Identities=24% Similarity=0.396 Sum_probs=28.5
Q ss_pred HhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHH
Q psy3837 35 ESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKME 84 (93)
Q Consensus 35 eSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e 84 (93)
+|||++| ++||.+-.++....-.....+.+++.+..|++++.++++
T Consensus 149 ~slK~vl----k~R~~~Q~~le~k~e~l~k~~~dr~~~~~ev~~~e~kve 194 (243)
T cd07666 149 ETLMGVI----KRRDQIQAELDSKVEALANKKADRDLLKEEIEKLEDKVE 194 (243)
T ss_pred HHHHHHH----HHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence 4555444 466776666665555555555556777777777777664
No 14
>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []. ; PDB: 3VP9_B 3VP8_B.
Probab=61.56 E-value=45 Score=22.17 Aligned_cols=55 Identities=13% Similarity=0.325 Sum_probs=31.5
Q ss_pred HHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHHHH
Q psy3837 33 ERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKMEAQV 87 (93)
Q Consensus 33 EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q~ 87 (93)
|=+++-+-...++..+|.-=.++...|-..+.|+....++......+|++-|..+
T Consensus 12 Ef~~~~~e~~~~k~~~~e~e~ki~~Qi~Em~~ir~~v~eLE~~h~kmK~~YEeEI 66 (79)
T PF08581_consen 12 EFENLSQEANSYKHQKDEYEHKINSQIQEMQQIRQKVYELEQAHRKMKQQYEEEI 66 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333344444455555556666666666666666666666666666655544
No 15
>KOG3119|consensus
Probab=59.97 E-value=27 Score=27.15 Aligned_cols=36 Identities=28% Similarity=0.451 Sum_probs=24.0
Q ss_pred HHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHH
Q psy3837 42 DKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKME 84 (93)
Q Consensus 42 d~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e 84 (93)
+-+||.||++-... ++|..+..++.+|...|+.+++
T Consensus 204 ~A~~kSR~~~k~~~-------~e~~~r~~~leken~~lr~~v~ 239 (269)
T KOG3119|consen 204 EAVRKSRDKRKQKE-------DEMAHRVAELEKENEALRTQVE 239 (269)
T ss_pred HHHHHhhhhHHHHH-------HHHHHHHHHHHHHHHHHHHHHH
Confidence 45778888876665 6666666666666666665553
No 16
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=59.66 E-value=75 Score=26.04 Aligned_cols=57 Identities=23% Similarity=0.431 Sum_probs=34.7
Q ss_pred hHHHHH---HHHhHHHHHHHHHHHHhHHHHHHHHHhhhh---hHHHHhhhHHHHHHHHHHHHH
Q psy3837 27 RDKIVL---ERESIRTLCDKLRKERDRAVSDLAEALRDS---DNIKKQKNETSKELKVLKEKM 83 (93)
Q Consensus 27 RdKIV~---EReSirtLCd~LRkERD~AvS~la~AiRd~---Ddi~kqk~ea~kel~~lKEk~ 83 (93)
=|.|+. +|-++..--|+||++|-..-..++.+..+. +.++.+..++.++|+.+++++
T Consensus 27 vd~i~~ld~~~r~l~~~~~~lr~~rn~~sk~i~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~ 89 (425)
T PRK05431 27 VDELLELDEERRELQTELEELQAERNALSKEIGQAKRKGEDAEALIAEVKELKEEIKALEAEL 89 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 556654 566666668999999987766666533333 245555555555555555444
No 17
>cd07627 BAR_Vps5p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps5p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp5p is the yeast counterpart of human SNX1 and is part of the retromer complex, which functions in the endosome-to-Golgi retrieval of vacuolar protein sorting receptor Vps10p, the Golgi-resident membrane protein A-ALP, and endopeptidase Kex2. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in
Probab=58.47 E-value=71 Score=23.41 Aligned_cols=61 Identities=20% Similarity=0.301 Sum_probs=33.3
Q ss_pred hhhhhHHHHHHHHhHHHHHHHHHHHHhHHH-------HHHHHHhhhhhHHHHhhhHHHHHHHHHHHHH
Q psy3837 23 AFSERDKIVLERESIRTLCDKLRKERDRAV-------SDLAEALRDSDNIKKQKNETSKELKVLKEKM 83 (93)
Q Consensus 23 AfsERdKIV~EReSirtLCd~LRkERD~Av-------S~la~AiRd~Ddi~kqk~ea~kel~~lKEk~ 83 (93)
+|+.|.++.+.=++...=-++.|..+++.. .++..+-.+..........+.++.+.+.+.+
T Consensus 106 ~~~~R~~~~~~~~~~~~~L~k~~~~~~Kl~~~~~s~~~K~~~~~~ei~~~e~~~~~a~~~~e~is~~~ 173 (216)
T cd07627 106 AFAQRQKLWQYWQSAESELSKKKAQLEKLKRQGKTQQEKLNSLLSELEEAERRASELKKEFEEVSELI 173 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 688888888776665555556665566553 2333333333444444444444554444444
No 18
>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]
Probab=58.04 E-value=94 Score=25.51 Aligned_cols=59 Identities=31% Similarity=0.440 Sum_probs=36.5
Q ss_pred hhHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHH
Q psy3837 26 ERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKME 84 (93)
Q Consensus 26 ERdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e 84 (93)
.||..-..=--++...+.+|-+||...-.+..---..+++-...+++.+++..++++..
T Consensus 42 kRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~eL~~~~~~l~e~~~ 100 (294)
T COG1340 42 KRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQELRKEYRELKEKRN 100 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34443333333566677777777777777666666666666666666666666666654
No 19
>PF05600 DUF773: Protein of unknown function (DUF773); InterPro: IPR008491 This family contains several eukaryotic sequences which are thought to be CDK5 activator-binding proteins, however, the function of this family is unknown.
Probab=57.42 E-value=1.1e+02 Score=26.08 Aligned_cols=63 Identities=17% Similarity=0.281 Sum_probs=52.3
Q ss_pred hHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHHHHHH
Q psy3837 27 RDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKMEAQVEL 89 (93)
Q Consensus 27 RdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q~ek 89 (93)
.|++|..=..-+.++++++..+.....+-.++.-......-+.+.+.+.-++||..+|+.+-|
T Consensus 434 vdrl~~~L~qk~~~~~k~~~~~~~l~~kr~e~~~e~~~l~pkL~~l~~~Tr~Lq~~iE~~ISk 496 (507)
T PF05600_consen 434 VDRLVESLQQKLKQEEKLRRKREDLEEKRQEAQEEQQELEPKLDALVERTRELQKQIEADISK 496 (507)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 366666666777888888888888888888888888888888888888999999988888765
No 20
>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=54.59 E-value=53 Score=23.69 Aligned_cols=57 Identities=32% Similarity=0.468 Sum_probs=40.9
Q ss_pred HHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHh
Q psy3837 30 IVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKMEAQVELE 90 (93)
Q Consensus 30 IV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q~eke 90 (93)
...++++..+=. .+||..+..|-..--|.+++++|..++..+.+..++..++++...
T Consensus 25 ~~~e~~~~k~ql----~~~d~~i~~Lk~~~~d~eeLk~~i~~lq~~~~~~~~~~e~~l~~~ 81 (155)
T PF06810_consen 25 VKEERDNLKTQL----KEADKQIKDLKKSAKDNEELKKQIEELQAKNKTAKEEYEAKLAQM 81 (155)
T ss_pred HHHHHHHHHHHH----HHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555544422 357777777777777889999999999999998887777776543
No 21
>PLN02320 seryl-tRNA synthetase
Probab=51.22 E-value=1.1e+02 Score=26.44 Aligned_cols=28 Identities=14% Similarity=0.297 Sum_probs=21.9
Q ss_pred HHHHHHhHHHHHHHHHHHHhHHHHHHHH
Q psy3837 30 IVLERESIRTLCDKLRKERDRAVSDLAE 57 (93)
Q Consensus 30 IV~EReSirtLCd~LRkERD~AvS~la~ 57 (93)
+=.+|-++.+-.++||.+|...-..+..
T Consensus 98 ld~~~r~~~~~~~~lr~ern~~sk~i~~ 125 (502)
T PLN02320 98 LYENMLALQKEVERLRAERNAVANKMKG 125 (502)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3456777788899999999988777765
No 22
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=49.80 E-value=90 Score=22.06 Aligned_cols=56 Identities=20% Similarity=0.386 Sum_probs=40.7
Q ss_pred HHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHH---HhhhHHHHHHHHHHHHHHHHH
Q psy3837 32 LERESIRTLCDKLRKERDRAVSDLAEALRDSDNIK---KQKNETSKELKVLKEKMEAQV 87 (93)
Q Consensus 32 ~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~---kqk~ea~kel~~lKEk~e~q~ 87 (93)
.|.-+++.=+.+|-.+||.+-.++.......|.+. ++...+..+++++..+.+.-+
T Consensus 30 ~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~~~~~~~~L~~el~~l~~ry~t~L 88 (120)
T PF12325_consen 30 GELASLQEELARLEAERDELREEIVKLMEENEELRALKKEVEELEQELEELQQRYQTLL 88 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35567777788888999999999998888887664 445556667777766665433
No 23
>KOG0933|consensus
Probab=48.73 E-value=2.7e+02 Score=27.24 Aligned_cols=82 Identities=23% Similarity=0.243 Sum_probs=58.0
Q ss_pred hhHHHHHHHHHHHHhhhhhhhhhhhHHHHHH-------HHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHH
Q psy3837 3 SVCCEESIQEAEVSKRRRDWAFSERDKIVLE-------RESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKE 75 (93)
Q Consensus 3 ~~el~ea~qeaevaKrrRDWAfsERdKIV~E-------ReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~ke 75 (93)
..||..+-+.++.+...=-=+..+...|+.| +.|-...-..+.++=+...+++....-..+++..-.+.++.+
T Consensus 793 ~keik~~k~~~e~~~~~~ek~~~e~e~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~kv~~~~~~~~~~~~e 872 (1174)
T KOG0933|consen 793 EKEIKTAKQRAEESSKELEKRENEYERLQLEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAKVDKVEKDVKKAQAE 872 (1174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHH
Confidence 3566666666665544333344556666655 455566667777777888888888888888888888899999
Q ss_pred HHHHHHHHH
Q psy3837 76 LKVLKEKME 84 (93)
Q Consensus 76 l~~lKEk~e 84 (93)
|+..|.++-
T Consensus 873 l~~~k~k~~ 881 (1174)
T KOG0933|consen 873 LKDQKAKQR 881 (1174)
T ss_pred HHHHHHHHH
Confidence 999988873
No 24
>PRK01005 V-type ATP synthase subunit E; Provisional
Probab=48.59 E-value=1.2e+02 Score=23.03 Aligned_cols=14 Identities=36% Similarity=0.797 Sum_probs=10.2
Q ss_pred hHHHHHHHHHHHHh
Q psy3837 36 SIRTLCDKLRKERD 49 (93)
Q Consensus 36 SirtLCd~LRkERD 49 (93)
-|..|||+|+++-=
T Consensus 9 k~q~L~dki~~eiL 22 (207)
T PRK01005 9 KLKQICDALREETL 22 (207)
T ss_pred HHHHHHHHHHHHHH
Confidence 36789999887543
No 25
>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]
Probab=48.36 E-value=1.5e+02 Score=24.31 Aligned_cols=54 Identities=22% Similarity=0.426 Sum_probs=36.2
Q ss_pred HHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHH
Q psy3837 30 IVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKM 83 (93)
Q Consensus 30 IV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~ 83 (93)
+-..|+-+++-...+|-+||..--++=+-.--.+..+.++++.-.++.++|++-
T Consensus 25 ~~ekR~El~~~~~~~~ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR 78 (294)
T COG1340 25 LKEKRDELRKEASELAEKRDELNAKVRELREKAQELREERDEINEEVQELKEKR 78 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334456677777778888887766665555555666667777777777777654
No 26
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=48.20 E-value=65 Score=19.94 Aligned_cols=9 Identities=22% Similarity=0.239 Sum_probs=3.3
Q ss_pred HHHHHHHHH
Q psy3837 76 LKVLKEKME 84 (93)
Q Consensus 76 l~~lKEk~e 84 (93)
|...++.++
T Consensus 77 l~~q~~~l~ 85 (127)
T smart00502 77 LEQQLESLT 85 (127)
T ss_pred HHHHHHHHH
Confidence 333333333
No 27
>PLN02678 seryl-tRNA synthetase
Probab=47.65 E-value=1.7e+02 Score=24.70 Aligned_cols=33 Identities=21% Similarity=0.143 Sum_probs=23.6
Q ss_pred HHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhh
Q psy3837 30 IVLERESIRTLCDKLRKERDRAVSDLAEALRDS 62 (93)
Q Consensus 30 IV~EReSirtLCd~LRkERD~AvS~la~AiRd~ 62 (93)
+=.+|-++.+=.++||.+|...-..++..-++.
T Consensus 38 ld~~~r~l~~~~e~lr~erN~~sk~I~~~k~~~ 70 (448)
T PLN02678 38 LDKEWRQRQFELDSLRKEFNKLNKEVAKLKIAK 70 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 335777888888999999988777776533333
No 28
>cd00520 RRF Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another round of protein synthesis. RRF is believed to bind the ribosome at the A-site in a manner that mimics tRNA, but the specific mechanisms remain unclear. RRF is essential for bacterial growth. It is not necessary for cell growth in archaea or eukaryotes, but is found in mitochondria or chloroplasts of some eukaryotic species.
Probab=46.60 E-value=1.1e+02 Score=22.46 Aligned_cols=45 Identities=18% Similarity=0.279 Sum_probs=32.9
Q ss_pred HHHHHHhHHHHHHHHHhh----hhhHHHHhhhHHHHHHHHHHHHHHHHH
Q psy3837 43 KLRKERDRAVSDLAEALR----DSDNIKKQKNETSKELKVLKEKMEAQV 87 (93)
Q Consensus 43 ~LRkERD~AvS~la~AiR----d~Ddi~kqk~ea~kel~~lKEk~e~q~ 87 (93)
++|.-|.++...+-.... ..|+.++..++.++-.+..-.+++..+
T Consensus 123 ~iRniR~~~~~~lKk~~k~~~iseD~~k~~~~~iqkltd~~i~~id~~~ 171 (179)
T cd00520 123 AIRNIRRDANDKIKKLEKEKEISEDEVKKAEEDLQKLTDEYIKKIDELL 171 (179)
T ss_pred HHHHHHHHHHHHHHHhhccCCCCchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367778888888777665 468888888888777777776666554
No 29
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=45.78 E-value=1.1e+02 Score=21.96 Aligned_cols=40 Identities=20% Similarity=0.481 Sum_probs=32.4
Q ss_pred hhhhhhhhHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhh
Q psy3837 20 RDWAFSERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRD 61 (93)
Q Consensus 20 RDWAfsERdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd 61 (93)
+-|.|| |=..-=|-|+.+-|.++=++-|..-+.|+.+-++
T Consensus 26 KGws~s--D~M~vTrr~m~~A~~~v~kql~~vs~~l~~tKkh 65 (126)
T PF07889_consen 26 KGWSFS--DLMFVTRRSMSDAVASVSKQLEQVSESLSSTKKH 65 (126)
T ss_pred cCCchh--HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567777 6677788999999999999998887777777654
No 30
>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []. ; PDB: 3VP9_B 3VP8_B.
Probab=43.03 E-value=98 Score=20.55 Aligned_cols=46 Identities=17% Similarity=0.323 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHH
Q psy3837 38 RTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKM 83 (93)
Q Consensus 38 rtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~ 83 (93)
-.|+|.||.|=|...+++...--.+|+...+.+.-..|+..++.++
T Consensus 3 ~elLd~ir~Ef~~~~~e~~~~k~~~~e~e~ki~~Qi~Em~~ir~~v 48 (79)
T PF08581_consen 3 NELLDAIRQEFENLSQEANSYKHQKDEYEHKINSQIQEMQQIRQKV 48 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 4689999999999999888887899999999999999999999876
No 31
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=41.98 E-value=1.7e+02 Score=26.11 Aligned_cols=81 Identities=25% Similarity=0.321 Sum_probs=55.3
Q ss_pred HHHHHHhhhhhhhhh------hhHHHH---HHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHH-
Q psy3837 11 QEAEVSKRRRDWAFS------ERDKIV---LERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLK- 80 (93)
Q Consensus 11 qeaevaKrrRDWAfs------ERdKIV---~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lK- 80 (93)
-|+|+.|-|.|=.-+ -|.+|- .-..+++.-+..||++-|..-+++....+..-.=+.....+.|.|.+..
T Consensus 423 LE~dvkkLraeLq~~Rq~E~ELRsqis~l~~~Er~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL~eE~~ 502 (697)
T PF09726_consen 423 LEADVKKLRAELQSSRQSEQELRSQISSLTNNERSLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRLAEERR 502 (697)
T ss_pred HHHHHHHHHHHHHhhhhhHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666654322 133422 2123677778899999999999999988877777777778888777654
Q ss_pred --HHHHHHHHHhh
Q psy3837 81 --EKMEAQVELER 91 (93)
Q Consensus 81 --Ek~e~q~eke~ 91 (93)
..+|+||..|+
T Consensus 503 ~R~~lEkQL~eEr 515 (697)
T PF09726_consen 503 QRASLEKQLQEER 515 (697)
T ss_pred HHHHHHHHHHHHH
Confidence 45688887664
No 32
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=41.32 E-value=1.5e+02 Score=26.08 Aligned_cols=57 Identities=25% Similarity=0.320 Sum_probs=45.1
Q ss_pred HHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHHHHH
Q psy3837 32 LERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKMEAQVE 88 (93)
Q Consensus 32 ~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q~e 88 (93)
+.|++++..++.++..|-.++.++-.-.-=.|.++..|+.+...|+++=++++.-.+
T Consensus 19 ~~~~~l~~~~~~~~~~r~~~~~~~~~~~elr~~~~eik~~~lenLd~~l~~~~~~v~ 75 (459)
T COG1139 19 QLREALRKAQDTLRANREKVLDELPDWEELRDLAREIKLHVLENLDEYLEQLEENVT 75 (459)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 568899999999999999999886555445567788888998888888777665544
No 33
>PF10157 DUF2365: Uncharacterized conserved protein (DUF2365); InterPro: IPR019314 This entry is found in a highly conserved family of proteins which have no known function.
Probab=41.17 E-value=1.4e+02 Score=21.88 Aligned_cols=51 Identities=16% Similarity=0.386 Sum_probs=35.8
Q ss_pred HHHHHHhHHHHHHHHHHHHhHHHHHHHHHh---hhhhHHHHhhhHHHHHHHHHHHHHH
Q psy3837 30 IVLERESIRTLCDKLRKERDRAVSDLAEAL---RDSDNIKKQKNETSKELKVLKEKME 84 (93)
Q Consensus 30 IV~EReSirtLCd~LRkERD~AvS~la~Ai---Rd~Ddi~kqk~ea~kel~~lKEk~e 84 (93)
+---++|+-.+||.+ |..|--.-..| -..+.-+++...+..+|++||..++
T Consensus 90 ~~~y~~sv~~~cdsv----D~sik~~y~liakceELn~~M~~v~~La~qIK~Ik~~lD 143 (149)
T PF10157_consen 90 METYKDSVDKLCDSV----DASIKSMYTLIAKCEELNESMKPVYKLAQQIKDIKKLLD 143 (149)
T ss_pred HHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344588999999986 66655443333 3445567788889999999997775
No 34
>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function. Several sequences in this family are described as being myosin heavy chain-like.
Probab=40.06 E-value=2.3e+02 Score=23.90 Aligned_cols=70 Identities=21% Similarity=0.194 Sum_probs=52.2
Q ss_pred hhHHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHH
Q psy3837 3 SVCCEESIQEAEVSKRRRDWAFSERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNET 72 (93)
Q Consensus 3 ~~el~ea~qeaevaKrrRDWAfsERdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea 72 (93)
+.+|..+..+....|.+..=|=+++-+++.|=++-+.+.+.|...-..+-..-..|+.++...+-+-.++
T Consensus 33 e~eL~~~qeel~~~k~~l~~~E~~k~~~l~ELe~akr~veel~~kLe~~~~~~~~a~~~~e~~k~r~~e~ 102 (522)
T PF05701_consen 33 ETELEKAQEELAKLKEQLEAAEREKAQALSELESAKRTVEELKLKLEKAQAEEKQAEEDSELAKFRAKEL 102 (522)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHH
Confidence 4577778888888888777777888889999999999999998876666665566666666555444444
No 35
>PF09728 Taxilin: Myosin-like coiled-coil protein; InterPro: IPR019132 Taxilin contains an extraordinarily long coiled-coil domain in its C-terminal half and is ubiquitously expressed. It is a novel binding partner of several syntaxin family members and is possibly involved in Ca(2+)-dependent exocytosis in neuroendocrine cells []. Gamma-taxilin, described as leucine zipper protein Factor Inhibiting ATF4-mediated Transcription (FIAT), localises to the nucleus in osteoblasts and dimerises with ATF4 to form inactive dimers, thus inhibiting ATF4-mediated transcription [].
Probab=39.71 E-value=1.9e+02 Score=22.96 Aligned_cols=65 Identities=20% Similarity=0.369 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHhhhhhhhhhhhHHHHHHHHhHHHHHHHHHHH------------------HhHHHHHHHHHhhhhhHHHH
Q psy3837 6 CEESIQEAEVSKRRRDWAFSERDKIVLERESIRTLCDKLRKE------------------RDRAVSDLAEALRDSDNIKK 67 (93)
Q Consensus 6 l~ea~qeaevaKrrRDWAfsERdKIV~EReSirtLCd~LRkE------------------RD~AvS~la~AiRd~Ddi~k 67 (93)
+...-...+.....+|=..+|..|.+.-|+-+-+||-.|-++ |..+.+.+-..|-|..+.+.
T Consensus 45 ~~~~~Kk~~~l~kek~~l~~E~~k~~~~k~KLE~LCRELQk~Nk~lkeE~~~~~~eee~kR~el~~kFq~~L~dIq~~~e 124 (309)
T PF09728_consen 45 LKKLQKKQEQLQKEKDQLQSELSKAILAKSKLESLCRELQKQNKKLKEESKRRAREEEEKRKELSEKFQATLKDIQAQME 124 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444555556678999999999999999999999998874 45555555566655555544
Q ss_pred hhh
Q psy3837 68 QKN 70 (93)
Q Consensus 68 qk~ 70 (93)
+.+
T Consensus 125 e~~ 127 (309)
T PF09728_consen 125 EQS 127 (309)
T ss_pred hcc
Confidence 443
No 36
>PF08376 NIT: Nitrate and nitrite sensing; InterPro: IPR013587 The nitrate and nitrite-sensing (NIT) domain is a (~250 aa) sensor domain found in various receptor components of signal transduction pathways from different bacterial lineages []. The NIT domain is predicted to be all alpha-helical in structure []. Proteins containing a NIT domain belong to one of four known classes of prokaryotic signal transduction proteins: intracellular transcription anti-termination regulators, sensor histidine kinases, methyl-accepting chemotaxis proteins, diguanylate cyclases/phosphodiesterases. NIT-containing receptors regulate cellular functions such as gene expression (transcription anti-terminators and histidine kinases), cell motility (chemotaxis receptors), and enzyme activity (diguanylate cyclases/phosphodiesterases), in response to changes in nitrate and/or nitrite concentrations. The NIT domain is found as both an extracellular and an intracellular sensor. The NIT domain can be found in combination with other signalling domains, such as ANTAR, HAMP (IPR003660 from INTERPRO), MCP, Hemerythrins (IPR002063 from INTERPRO), CHASE (IPR006189 from INTERPRO), GGDEF (IPR000160 from INTERPRO), PAS (IPR000014 from INTERPRO), EAL (IPR001633 from INTERPRO), HK (IPR005467 from INTERPRO), GAF, REC and Hpt (IPR008207 from INTERPRO).; PDB: 4AKK_A.
Probab=38.52 E-value=1.3e+02 Score=20.72 Aligned_cols=21 Identities=38% Similarity=0.542 Sum_probs=9.8
Q ss_pred HHHHHHHHhHHHHHHHHHhhh
Q psy3837 41 CDKLRKERDRAVSDLAEALRD 61 (93)
Q Consensus 41 Cd~LRkERD~AvS~la~AiRd 61 (93)
+..-|..=|+++..+...+.+
T Consensus 30 l~~qr~~tD~a~~~~~~~~~~ 50 (247)
T PF08376_consen 30 LKAQRAATDRAIAELRRALAD 50 (247)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 333444445555555554443
No 37
>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals. PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.
Probab=37.56 E-value=1.1e+02 Score=26.74 Aligned_cols=54 Identities=39% Similarity=0.511 Sum_probs=42.3
Q ss_pred HHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhh--------hhHHHHhhhHHHHHHH---HHHHHH
Q psy3837 30 IVLERESIRTLCDKLRKERDRAVSDLAEALRD--------SDNIKKQKNETSKELK---VLKEKM 83 (93)
Q Consensus 30 IV~EReSirtLCd~LRkERD~AvS~la~AiRd--------~Ddi~kqk~ea~kel~---~lKEk~ 83 (93)
++-|=+|||.-||+|=.---.-|.+||..+|. ..++++||-++..-|. +.||+.
T Consensus 261 l~~el~siRr~Cd~lP~~m~tKveelar~Lr~~I~~VarENs~LqrQKle~e~~l~a~qeakek~ 325 (442)
T PF06637_consen 261 LGPELESIRRTCDHLPKIMTTKVEELARSLRAGIERVARENSDLQRQKLEAEQGLQASQEAKEKA 325 (442)
T ss_pred CcchHHHHHHHHhhchHHHHHHHHHHHHHHhhhHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34677899999999999888888899888875 4678899988887764 344444
No 38
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=36.54 E-value=2e+02 Score=24.10 Aligned_cols=16 Identities=44% Similarity=0.569 Sum_probs=13.0
Q ss_pred hhHHHHHHHHHHHHHH
Q psy3837 69 KNETSKELKVLKEKME 84 (93)
Q Consensus 69 k~ea~kel~~lKEk~e 84 (93)
..+|.|||+.||+-+|
T Consensus 119 LKEARkEIkQLkQvie 134 (305)
T PF15290_consen 119 LKEARKEIKQLKQVIE 134 (305)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3589999999998765
No 39
>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]
Probab=36.41 E-value=3.1e+02 Score=24.40 Aligned_cols=70 Identities=30% Similarity=0.321 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHH
Q psy3837 5 CCEESIQEAEVSKRRRDWAFSERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKE 81 (93)
Q Consensus 5 el~ea~qeaevaKrrRDWAfsERdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKE 81 (93)
||.-+.++-+.+.--|.=|-||=.|.-+||+.+ |-+++.|-.+++.|.-+.--+-+|-.++.-+|+.|-+
T Consensus 89 el~~a~~~k~~~e~er~~~~~El~~~r~e~~~v-------~~~~~~a~~n~~kAqQ~lar~t~Q~q~lqtrl~~l~~ 158 (499)
T COG4372 89 ELGTAQGEKRAAETEREAARSELQKARQEREAV-------RQELAAARQNLAKAQQELARLTKQAQDLQTRLKTLAE 158 (499)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444433444444444444555555 4455555556666666666677777777777776654
No 40
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=36.09 E-value=1.8e+02 Score=21.52 Aligned_cols=18 Identities=44% Similarity=0.597 Sum_probs=7.6
Q ss_pred HhhhHHHHHHHHHHHHHH
Q psy3837 67 KQKNETSKELKVLKEKME 84 (93)
Q Consensus 67 kqk~ea~kel~~lKEk~e 84 (93)
...+++.++++.|+.+++
T Consensus 110 ~~l~~l~~~~~~l~~el~ 127 (188)
T PF03962_consen 110 EELEELKKELKELKKELE 127 (188)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333444444444444443
No 41
>PF01765 RRF: Ribosome recycling factor; InterPro: IPR023584 The ribosome recycling factor or ribosome release factor (RRF) dissociates ribosomes from mRNA after termination of translation, and is essential for bacterial growth []. Thus ribosomes are 'recycled' and ready for another round of protein synthesis. This entry represents a domain found in ribosome recycling factors.; PDB: 3R8N_Y 1Y69_8 1ISE_A 1EK8_A 1DD5_A 1WIH_A 2Z4L_6 2QBE_6 2V46_Y 1EH1_A ....
Probab=36.07 E-value=1.6e+02 Score=20.93 Aligned_cols=46 Identities=24% Similarity=0.276 Sum_probs=30.2
Q ss_pred HHHHHHHhHHHHHHHHHh----hhhhHHHHhhhHHHHHHHHHHHHHHHHH
Q psy3837 42 DKLRKERDRAVSDLAEAL----RDSDNIKKQKNETSKELKVLKEKMEAQV 87 (93)
Q Consensus 42 d~LRkERD~AvS~la~Ai----Rd~Ddi~kqk~ea~kel~~lKEk~e~q~ 87 (93)
..||.-|-.+...+-..- -..|++++..++.++-.+..-.+++..+
T Consensus 108 ~~iR~iR~~~~~~lkk~~~~~~~s~D~~~~~~~~iq~l~~~~~~~id~~~ 157 (165)
T PF01765_consen 108 VSIRNIRRDAMKKLKKLKKSKEISEDDIKKLEKEIQKLTDKYIKKIDELL 157 (165)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhhhccCCCCchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 456777777777765544 4678888888777776666666655443
No 42
>PF14988 DUF4515: Domain of unknown function (DUF4515)
Probab=35.22 E-value=2e+02 Score=21.76 Aligned_cols=57 Identities=23% Similarity=0.381 Sum_probs=33.0
Q ss_pred HHHHHHHHhHHHHHHHHHHHHhHHHHHHHH---------------------HhhhhhHHHHhhhHHHHHHHHHHHHHH
Q psy3837 28 DKIVLERESIRTLCDKLRKERDRAVSDLAE---------------------ALRDSDNIKKQKNETSKELKVLKEKME 84 (93)
Q Consensus 28 dKIV~EReSirtLCd~LRkERD~AvS~la~---------------------AiRd~Ddi~kqk~ea~kel~~lKEk~e 84 (93)
.+|+.=-+....-|..+.++|+..+|.++. -+.+..++.+.+..-.++|..|++.+.
T Consensus 18 ~~i~~L~~q~~~~~~~i~~~r~~l~s~y~~q~~~Lq~qLlq~~k~~~~l~~eLq~l~~~~~~k~~qe~eI~~Le~e~~ 95 (206)
T PF14988_consen 18 KKIEKLWKQYIQQLEEIQRERQELVSRYAKQTSELQDQLLQKEKEQAKLQQELQALKEFRRLKEQQEREIQTLEEELE 95 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555666666666666666666554 344455555566666666666665553
No 43
>PRK02224 chromosome segregation protein; Provisional
Probab=34.96 E-value=3e+02 Score=23.72 Aligned_cols=23 Identities=26% Similarity=0.261 Sum_probs=10.9
Q ss_pred hhhHHHHhhhHHHHHHHHHHHHH
Q psy3837 61 DSDNIKKQKNETSKELKVLKEKM 83 (93)
Q Consensus 61 d~Ddi~kqk~ea~kel~~lKEk~ 83 (93)
..+++.....++..+++.+++++
T Consensus 406 ~~~~~e~~l~~l~~~~~~l~~~~ 428 (880)
T PRK02224 406 DLGNAEDFLEELREERDELRERE 428 (880)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHH
Confidence 33444444445555555554443
No 44
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=33.99 E-value=45 Score=29.02 Aligned_cols=21 Identities=19% Similarity=0.352 Sum_probs=17.3
Q ss_pred HHHHhhhHHHHHHHHHHHHHH
Q psy3837 64 NIKKQKNETSKELKVLKEKME 84 (93)
Q Consensus 64 di~kqk~ea~kel~~lKEk~e 84 (93)
+..+|+++++|||.+||+++.
T Consensus 28 ~~~qkie~L~kql~~Lk~q~~ 48 (489)
T PF11853_consen 28 DLLQKIEALKKQLEELKAQQD 48 (489)
T ss_pred HHHHHHHHHHHHHHHHHHhhc
Confidence 456699999999999998864
No 45
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptor
Probab=32.95 E-value=40 Score=21.93 Aligned_cols=34 Identities=29% Similarity=0.615 Sum_probs=23.2
Q ss_pred HHhhhhhhhhhhhHHHHHHHHhHHHHHHHHHH-HHhHHHHHH
Q psy3837 15 VSKRRRDWAFSERDKIVLERESIRTLCDKLRK-ERDRAVSDL 55 (93)
Q Consensus 15 vaKrrRDWAfsERdKIV~EReSirtLCd~LRk-ERD~AvS~l 55 (93)
+..--++|... +-.++-.||..|++ .|++++..|
T Consensus 42 ~~~lL~~W~~r-------~~ATv~~L~~aL~~i~R~Di~~~L 76 (77)
T cd08311 42 VRTLLADWSAQ-------EGATLDALCTALRRIQREDIAESL 76 (77)
T ss_pred HHHHHHHHHHC-------cCchHHHHHHHHHHcChHHHHHhc
Confidence 34456788753 23788889998888 677766544
No 46
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=32.39 E-value=2e+02 Score=25.15 Aligned_cols=16 Identities=25% Similarity=0.555 Sum_probs=9.6
Q ss_pred HHhHHHHHHHHHHHHh
Q psy3837 34 RESIRTLCDKLRKERD 49 (93)
Q Consensus 34 ReSirtLCd~LRkERD 49 (93)
+|-||||.-.+|.-|.
T Consensus 58 ~DTlrTlva~~k~~r~ 73 (472)
T TIGR03752 58 ADTLRTLVAEVKELRK 73 (472)
T ss_pred cchHHHHHHHHHHHHH
Confidence 4556666666665554
No 47
>PRK07720 fliJ flagellar biosynthesis chaperone; Validated
Probab=32.23 E-value=1.6e+02 Score=19.93 Aligned_cols=48 Identities=17% Similarity=0.302 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHH
Q psy3837 37 IRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKME 84 (93)
Q Consensus 37 irtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e 84 (93)
+-+|.|-=.++.|.|...|+.|.+..+....+.+.+.....+..+.+.
T Consensus 7 L~~vL~l~~~~ee~a~~~L~~a~~~~~~~~~~L~~L~~~~~~~~~~~~ 54 (146)
T PRK07720 7 LQKVLELKENEKEKALGEYEEAVSRFEQVAEKLYELLKQKEDLEQAKE 54 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445445667888888888888888877777777777766666553
No 48
>PF05739 SNARE: SNARE domain; InterPro: IPR000727 The process of vesicular fusion with target membranes depends on a set of SNAREs (SNAP-Receptors), which are associated with the fusing membranes [, ]. Target SNAREs (t-SNAREs) are localised on the target membrane and belong to two different families, the syntaxin-like family and the SNAP-25 like family. One member of each family, together with a v-SNARE localised on the vesicular membrane, are required for fusion. The Syntaxins are type-I transmembrane proteins that contain several regions with coiled-coil propensity in their cytosolic part, the SNARE motif. SNAP-25 (IPR000928 from INTERPRO) is a protein consisting of two coiled-coil regions, which is associated with the membrane by lipid anchors. SNARE motifs assemble into parallel four helix bundles stabilised by the burial of these hydrophobic helix faces in the bundle core. Monomeric SNARE motifs are disordered so this assembly reaction is accompanied by a dramatic increase in alpha-helical secondary structure []. The parallel arrangement of SNARE motifs within complexes bring the transmembrane anchors, and the two membranes, into close proximity. Recently, it was shown that the two coiled-coil regions of SNAP-25 and one of the coiled-coil regions of the syntaxins are related []. This domain is found in both Syntaxin and SNAP-25 families as well as in other proteins.; GO: 0005515 protein binding; PDB: 1URQ_B 3RL0_R 1HVV_B 1SFC_B 1N7S_B 3IPD_B 3C98_B 3HD7_F 3RK2_B 1KIL_B ....
Probab=31.55 E-value=1.1e+02 Score=17.66 Aligned_cols=41 Identities=20% Similarity=0.422 Sum_probs=26.9
Q ss_pred HHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHHHH
Q psy3837 47 ERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKMEAQV 87 (93)
Q Consensus 47 ERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q~ 87 (93)
|||..+..|...+.+.-.+-...+....+-+++=..|+..+
T Consensus 1 e~d~~l~~l~~~i~~l~~~~~~i~~ev~~Q~~~ld~i~~~v 41 (63)
T PF05739_consen 1 ERDEELDELEQSIQELKQMFQDIGEEVEEQNEMLDRIEDNV 41 (63)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHCHhhHHHHHHHH
Confidence 57777777777777777666666666666555555555444
No 49
>PRK11637 AmiB activator; Provisional
Probab=29.14 E-value=3e+02 Score=22.03 Aligned_cols=21 Identities=19% Similarity=0.376 Sum_probs=8.1
Q ss_pred hHHHHhhhHHHHHHHHHHHHH
Q psy3837 63 DNIKKQKNETSKELKVLKEKM 83 (93)
Q Consensus 63 Ddi~kqk~ea~kel~~lKEk~ 83 (93)
+.+..+.+.+.++|..+++++
T Consensus 99 ~~~~~ei~~l~~eI~~~q~~l 119 (428)
T PRK11637 99 NQLNKQIDELNASIAKLEQQQ 119 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333444443333
No 50
>TIGR00496 frr ribosome recycling factor. This model finds only eubacterial proteins. Mitochondrial and/or chloroplast forms might be expected but are not currently known. This protein was previously called ribosome releasing factor. By releasing ribosomes from mRNA at the end of protein biosynthesis, it prevents inappropriate translation from 3-prime regions of the mRNA and frees the ribosome for new rounds of translation. EGAD|53116|YHR038W is part of the frr superfamily.
Probab=27.80 E-value=2.5e+02 Score=20.68 Aligned_cols=45 Identities=16% Similarity=0.222 Sum_probs=31.4
Q ss_pred HHHHHHhHHHHHHHHHhh----hhhHHHHhhhHHHHHHHHHHHHHHHHH
Q psy3837 43 KLRKERDRAVSDLAEALR----DSDNIKKQKNETSKELKVLKEKMEAQV 87 (93)
Q Consensus 43 ~LRkERD~AvS~la~AiR----d~Ddi~kqk~ea~kel~~lKEk~e~q~ 87 (93)
.||.-|.++...+-.... ..|+.++..++.++-.+..-.+++..+
T Consensus 118 ~iRniRr~~~~~iKk~~k~~~iseD~~k~~~~~iQkltd~~i~~id~~~ 166 (176)
T TIGR00496 118 AVRNVRRDANDKVKKLEKDKEISEDEERRLQEEIQKLTDEYIKKIDEIL 166 (176)
T ss_pred HHHHHHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456667777776664432 368888888888888777777766554
No 51
>TIGR02473 flagell_FliJ flagellar export protein FliJ. Members of this family are the FliJ protein found, in nearly every case, in the midst of other flagellar biosynthesis genes in bacgterial genomes. Typically the fliJ gene is found adjacent to the gene for the flagellum-specific ATPase FliI. Sequence scoring in the gray zone between trusted and noise cutoffs include both probable FliJ proteins and components of bacterial type III secretion systems.
Probab=27.50 E-value=1.8e+02 Score=18.92 Aligned_cols=43 Identities=23% Similarity=0.244 Sum_probs=25.0
Q ss_pred HHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHH
Q psy3837 39 TLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKE 81 (93)
Q Consensus 39 tLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKE 81 (93)
+|.+-=..+.|.|...|+.+....+.+..+.+.+.......-.
T Consensus 6 ~vl~lr~~~ed~a~~~la~~~~~~~~~~~~l~~l~~~~~~~~~ 48 (141)
T TIGR02473 6 KLLDLREKEEEQAKLELAKAQAEFERLETQLQQLIKYREEYEQ 48 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444344566677777777776666666666555555554433
No 52
>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=27.20 E-value=4e+02 Score=22.84 Aligned_cols=65 Identities=20% Similarity=0.249 Sum_probs=37.5
Q ss_pred hhhhhhhh-hhHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhh----HHHHhhhHHHHHHHHHHHH
Q psy3837 18 RRRDWAFS-ERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSD----NIKKQKNETSKELKVLKEK 82 (93)
Q Consensus 18 rrRDWAfs-ERdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~D----di~kqk~ea~kel~~lKEk 82 (93)
|.-+|..- +=-.+=.+|-++.+--+.|+++|...-..++.++-... .+....+....+|+.+..+
T Consensus 21 r~~~~~~~~~~~~ld~~~r~~~~~~e~l~~~rn~~sk~ig~~~~~~~~~~~~l~~e~~~l~~~l~~~e~~ 90 (429)
T COG0172 21 RGGDALDVDKLLELDEERRKLLRELEELQAERNELSKEIGRALKRGEDDAEELIAEVKELKEKLKELEAA 90 (429)
T ss_pred cCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHhccHH
Confidence 33466532 22334457888888899999999988888875554322 2333334444444444433
No 53
>PF12022 DUF3510: Domain of unknown function (DUF3510); InterPro: IPR024603 The COG complex comprises eight proteins (COG1-8) and plays critical roles in Golgi structure and function []. This uncharacterised domain is found in the C-terminal of COG complex subunit 2 proteins.
Probab=27.16 E-value=50 Score=22.78 Aligned_cols=35 Identities=23% Similarity=0.360 Sum_probs=25.0
Q ss_pred HhHHHHHHHHHHHHhHHHHHH---HHHhhhhhHHHHhh
Q psy3837 35 ESIRTLCDKLRKERDRAVSDL---AEALRDSDNIKKQK 69 (93)
Q Consensus 35 eSirtLCd~LRkERD~AvS~l---a~AiRd~Ddi~kqk 69 (93)
.||+...++|+|-+...-... ..++-|.|.|+.|.
T Consensus 84 ~sv~KtEeSL~rlkk~~~~~~~~~~~~~sD~dKIr~QL 121 (125)
T PF12022_consen 84 TSVRKTEESLKRLKKRRKRTSGSSSGGMSDDDKIRLQL 121 (125)
T ss_pred HHHHHHHHHHHHHHHhhcccccccCCCCCcHHHHHHHH
Confidence 688889999888766533222 35788888888775
No 54
>KOG0811|consensus
Probab=26.76 E-value=2.5e+02 Score=22.45 Aligned_cols=48 Identities=29% Similarity=0.340 Sum_probs=39.5
Q ss_pred HHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHHHHH
Q psy3837 41 CDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKMEAQVE 88 (93)
Q Consensus 41 Cd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q~e 88 (93)
=-.+..||..++..|=..|.|...|-|+..-...|=-++=..||+.++
T Consensus 171 ~~~~ieeR~q~I~~lE~dI~dvN~IFkdL~~lV~eQG~~VDsIe~nve 218 (269)
T KOG0811|consen 171 QLDLIEEREQAIEQLEADIIDVNEIFKDLGSLVHEQGELVDSIEANVE 218 (269)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhHHHHHHH
Confidence 346788999999999999999999999988888877766666666654
No 55
>PTZ00399 cysteinyl-tRNA-synthetase; Provisional
Probab=26.56 E-value=3.1e+02 Score=24.13 Aligned_cols=11 Identities=18% Similarity=0.492 Sum_probs=7.8
Q ss_pred HHHHHHHHhHH
Q psy3837 28 DKIVLERESIR 38 (93)
Q Consensus 28 dKIV~EReSir 38 (93)
+.++..|+.+|
T Consensus 487 ~~l~~~R~~~R 497 (651)
T PTZ00399 487 EALLRFRDEVR 497 (651)
T ss_pred HHHHHHHHHHH
Confidence 35667788888
No 56
>KOG4571|consensus
Probab=26.12 E-value=2.6e+02 Score=23.22 Aligned_cols=39 Identities=21% Similarity=0.405 Sum_probs=26.9
Q ss_pred HHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHH
Q psy3837 46 KERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKME 84 (93)
Q Consensus 46 kERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e 84 (93)
.|+..+.+++-.-=+.-+.++.|-.++.+||..||.-|.
T Consensus 248 ae~E~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKqli~ 286 (294)
T KOG4571|consen 248 AEKEALLGELEGLEKRNEELKDQASELEREIRYLKQLIL 286 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555544445566788888999999999997664
No 57
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition. This family consists of various Escherichia coli insertion elements and other bacterial transposases some of which are members of the IS3 family. This region includes a helix-turn-helix motif (HTH) at the N terminus followed by a leucine zipper (LZ) motif. The LZ motif has been shown to mediate oligomerisation of the transposase components in IS911 []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2JN6_A 2RN7_A.
Probab=26.09 E-value=74 Score=18.69 Aligned_cols=28 Identities=21% Similarity=0.316 Sum_probs=16.9
Q ss_pred hhhhhhhhhhhHHHHHHH----HhHHHHHHHH
Q psy3837 17 KRRRDWAFSERDKIVLER----ESIRTLCDKL 44 (93)
Q Consensus 17 KrrRDWAfsERdKIV~ER----eSirtLCd~L 44 (93)
++||.|--..+..||.+- .||..+|..+
T Consensus 2 ~~r~~ys~e~K~~~v~~~~~~g~sv~~va~~~ 33 (76)
T PF01527_consen 2 RKRRRYSPEFKLQAVREYLESGESVSEVAREY 33 (76)
T ss_dssp -SS----HHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHHCCCceEeeeccc
Confidence 457888888888888766 5777777653
No 58
>PRK04863 mukB cell division protein MukB; Provisional
Probab=26.01 E-value=6.4e+02 Score=24.80 Aligned_cols=58 Identities=12% Similarity=0.154 Sum_probs=42.9
Q ss_pred hhHHHHHHHHhHHHHH-------HHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHH
Q psy3837 26 ERDKIVLERESIRTLC-------DKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKM 83 (93)
Q Consensus 26 ERdKIV~EReSirtLC-------d~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~ 83 (93)
.-...+..++++++|| ++|...-+..-+.+.+.-....+.+.+.+.+...++.+.+..
T Consensus 415 q~qq~i~~Le~~~~~~~~~~~SdEeLe~~LenF~aklee~e~qL~elE~kL~~lea~leql~~~~ 479 (1486)
T PRK04863 415 QYQQAVQALERAKQLCGLPDLTADNAEDWLEEFQAKEQEATEELLSLEQKLSVAQAAHSQFEQAY 479 (1486)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456678889999999 677777777777777777777777777777777776666554
No 59
>TIGR01147 V_ATP_synt_G vacuolar ATP synthase, subunit G. This model describes the vacuolar ATP synthase G subunit in eukaryotes and includes members from diverse groups e.g., fungi, plants, parasites etc. V-ATPases are multi-subunit enzymes composed of two functional domains: A transmembrane Vo domain and a peripheral catalytic domain V1. The G subunit is one of the subunits of the catalytic domain. V-ATPases are responsible for the acidification of endosomes and lysosomes, which are part of the central vacuolar system.
Probab=25.87 E-value=2.4e+02 Score=19.88 Aligned_cols=30 Identities=27% Similarity=0.440 Sum_probs=23.2
Q ss_pred hhhhHHHHhhhHHHHHHHHHHHHHHHHHHH
Q psy3837 60 RDSDNIKKQKNETSKELKVLKEKMEAQVEL 89 (93)
Q Consensus 60 Rd~Ddi~kqk~ea~kel~~lKEk~e~q~ek 89 (93)
+...-++.-|.+|.+||..++.+.|.++.+
T Consensus 28 ~r~~RLKqAK~EA~~EI~~yr~~kE~ef~~ 57 (113)
T TIGR01147 28 RKTKRLKQAKEEAQKEVEKYKQQREKEFKE 57 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334556677889999999999888887755
No 60
>TIGR02837 spore_II_R stage II sporulation protein R. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage II sporulation protein R.
Probab=25.81 E-value=2.4e+02 Score=21.50 Aligned_cols=48 Identities=15% Similarity=0.218 Sum_probs=37.2
Q ss_pred HHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHHHHHHhhc
Q psy3837 45 RKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKMEAQVELERY 92 (93)
Q Consensus 45 RkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q~eke~~ 92 (93)
++-||..+..+...+-++.++..-+.-+...+.+|++-.+..+.++-|
T Consensus 58 l~VRD~Vl~~~~~~~~~~~s~~ea~~~i~~~l~~Ie~~a~~~l~~~G~ 105 (168)
T TIGR02837 58 LKVRDAVLKEIRPWLSGLKSLEEARRVIRENLPEIERIAESVIKAEGA 105 (168)
T ss_pred HHHHHHHHHHHHHHhccCCCHHHHHHHHHHhhHHHHHHHHHHHHHhCC
Confidence 457888888888888888888777777777888888777777766544
No 61
>PRK04654 sec-independent translocase; Provisional
Probab=25.78 E-value=3.4e+02 Score=21.56 Aligned_cols=48 Identities=13% Similarity=0.275 Sum_probs=24.1
Q ss_pred HhHHHHHHHHHHHHhHHHHHHHHHhh---hhhHHHHhhhHHHHHHHHHHHHH
Q psy3837 35 ESIRTLCDKLRKERDRAVSDLAEALR---DSDNIKKQKNETSKELKVLKEKM 83 (93)
Q Consensus 35 eSirtLCd~LRkERD~AvS~la~AiR---d~Ddi~kqk~ea~kel~~lKEk~ 83 (93)
+-.|+|..-+|+-|. +++.+-.-+. +.+++++..++....++.++..+
T Consensus 27 e~aRtlGk~irk~R~-~~~~vk~El~~El~~~ELrk~l~~~~~~i~~~~~~l 77 (214)
T PRK04654 27 KAARFAGLWVRRARM-QWDSVKQELERELEAEELKRSLQDVQASLREAEDQL 77 (214)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677777777664 2333322221 23455555555555555555444
No 62
>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX2 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=25.65 E-value=3.1e+02 Score=21.04 Aligned_cols=61 Identities=15% Similarity=0.258 Sum_probs=40.0
Q ss_pred hhhhhHHHHHHHHhHHHHHHHHHHHHhHHHH---------HHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHHHH
Q psy3837 23 AFSERDKIVLERESIRTLCDKLRKERDRAVS---------DLAEALRDSDNIKKQKNETSKELKVLKEKMEAQV 87 (93)
Q Consensus 23 AfsERdKIV~EReSirtLCd~LRkERD~AvS---------~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q~ 87 (93)
+|++|-|+++- .-+.+.+|.|-|.. .. ++..+-.+-.+......++.++.+.+.+.+..++
T Consensus 124 ~f~~R~k~~~~---~~~a~~~L~kkr~~-~~Kl~~~~k~dK~~~~~~ev~~~e~~~~~a~~~fe~Is~~~k~El 193 (234)
T cd07664 124 VFDQRMKCWQK---WQDAQVTLQKKREA-EAKLQYANKPDKLQQAKDEIKEWEAKVQQGERDFEQISKTIRKEV 193 (234)
T ss_pred HHHHHHHHHHH---HHHHHHHHHHHHHH-HHHHhhcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78899998874 44667777776644 23 3334444556666677777777777777775554
No 63
>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]
Probab=24.50 E-value=5.6e+02 Score=23.61 Aligned_cols=62 Identities=19% Similarity=0.217 Sum_probs=37.8
Q ss_pred hhhhhhhHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHH
Q psy3837 21 DWAFSERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEK 82 (93)
Q Consensus 21 DWAfsERdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk 82 (93)
+|.-++...+-.+..+++.--+.+..++++.-+.+........++.-+.+++..++.+++..
T Consensus 386 ~~~~~~~~~~~~~l~~l~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 447 (1163)
T COG1196 386 AELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAELEELQTELEELNEE 447 (1163)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence 45555566666666666666666666666666666666666666666555544444444433
No 64
>COG1938 Archaeal enzymes of ATP-grasp superfamily [General function prediction only]
Probab=24.41 E-value=1.5e+02 Score=23.58 Aligned_cols=38 Identities=26% Similarity=0.431 Sum_probs=29.2
Q ss_pred HHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHHHHH
Q psy3837 51 AVSDLAEALRDSDNIKKQKNETSKELKVLKEKMEAQVE 88 (93)
Q Consensus 51 AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q~e 88 (93)
|++++..-==|.|.+.||-.+...+|+++-|+++.+.+
T Consensus 195 ~lnk~~~l~V~td~L~keAe~i~~~lekl~eq~~~~~~ 232 (244)
T COG1938 195 ALNKMLGLNVDTDKLEKEAEEIEEQLEKLAEQLEKEEE 232 (244)
T ss_pred HHHHHhcCccCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444457899999999999999999999988875
No 65
>cd07625 BAR_Vps17p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps17p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp17p forms a dimer with Vps5p, the yeast counterpart of human SNX1, and is part of the retromer complex that mediates the transport of the carboxypeptidase Y receptor Vps10p from endosomes to Golgi. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=24.37 E-value=3.4e+02 Score=21.03 Aligned_cols=58 Identities=21% Similarity=0.318 Sum_probs=36.1
Q ss_pred hhhhhHHHHHHHHhHHHHHHHHHHHHhHH-----HH-----HHHHHhhhhhHHHHhhhHHHHHHHHHHHHH
Q psy3837 23 AFSERDKIVLERESIRTLCDKLRKERDRA-----VS-----DLAEALRDSDNIKKQKNETSKELKVLKEKM 83 (93)
Q Consensus 23 AfsERdKIV~EReSirtLCd~LRkERD~A-----vS-----~la~AiRd~Ddi~kqk~ea~kel~~lKEk~ 83 (93)
||++|-+|+.|= -..+.++++-|..+ .+ ++-+|+++.++..+.-.+++.+.+.+-..|
T Consensus 120 altnR~~~~re~---~qAq~~~~~K~~~~~rlk~s~~i~~~KvdeA~~~l~eA~~~e~~l~~k~~rIs~nm 187 (230)
T cd07625 120 ALTNRHLLMREL---IQAQQNTKSKQEAARRLKAKRDINPLKVDEAIRQLEEATKHEHDLSLKLKRITGNM 187 (230)
T ss_pred HHHHHHHHHHHH---HHHHHHHHHHHHHHHHHhcCCCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 799999998763 34455555544332 12 556677777766666666666666666555
No 66
>PF11598 COMP: Cartilage oligomeric matrix protein; InterPro: IPR024665 Thrombospondins are adhesive glycoproteins that mediate cell-to-cell and cell-to-matrix interactions. Cartilage oligomeric matrix protein may play a role in the structural integrity of cartilage via its interaction with other extracellular matrix proteins such as collagen and fibronectin [, ]. Thrombospondin 3 and 4 and cartilage oligomeric matrix proteins contain a five-stranded coiled-coil domain represented by this entry. This domain has a binding site between two internal rings formed by Leu37 and Thr40 [].; PDB: 1MZ9_D 1FBM_A 1VDF_E.
Probab=24.33 E-value=1.8e+02 Score=17.81 Aligned_cols=26 Identities=31% Similarity=0.364 Sum_probs=20.0
Q ss_pred HHHHhhhHHHHHHHHHHHHHHHHHHH
Q psy3837 64 NIKKQKNETSKELKVLKEKMEAQVEL 89 (93)
Q Consensus 64 di~kqk~ea~kel~~lKEk~e~q~ek 89 (93)
.+-+|.+++..-|.++|+-|..|...
T Consensus 5 ~l~~ql~~l~~~l~elk~~l~~Q~kE 30 (45)
T PF11598_consen 5 QLIKQLSELNQMLQELKELLRQQIKE 30 (45)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35578888888888888888887643
No 67
>cd08812 CARD_RIG-I_like Caspase activation and recruitment domains found in RIG-I-like DEAD box helicases. Caspase activation and recruitment domains (CARDs) found in Retinoic acid Inducible Gene I (RIG-I)-like DEAD box helicases. These helicases, including MDA5 and RIG-I, contain two N-terminal CARD domains and a C-terminal DEAD box RNA helicase domain. They are cytoplasmic RNA helicases that play an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, RIG-I and MDA5 have been shown to recognize different sets of viruses. MDA5 and RIG-I associate with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mec
Probab=24.19 E-value=1.5e+02 Score=19.34 Aligned_cols=38 Identities=21% Similarity=0.455 Sum_probs=29.9
Q ss_pred hhHHHHHHH------HhHHHHHHHHHH-HHhHHHHHHHHHhhhhh
Q psy3837 26 ERDKIVLER------ESIRTLCDKLRK-ERDRAVSDLAEALRDSD 63 (93)
Q Consensus 26 ERdKIV~ER------eSirtLCd~LRk-ERD~AvS~la~AiRd~D 63 (93)
..+.|-++. +....|-+.|.+ .+-.+.+.+..|++++.
T Consensus 36 ~~e~I~a~~~~~g~~~aa~~Ll~~L~~~r~~~wf~~Fl~AL~~~g 80 (88)
T cd08812 36 DKEQILAEERNKGNIAAAEELLDRLERCDKPGWFQAFLDALRRTG 80 (88)
T ss_pred HHHHHHHHHhccChHHHHHHHHHHHHHhccCCcHHHHHHHHHHcC
Confidence 455566554 467889999998 88899999999999875
No 68
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=23.99 E-value=3.1e+02 Score=20.44 Aligned_cols=32 Identities=19% Similarity=0.412 Sum_probs=13.3
Q ss_pred hHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHH
Q psy3837 36 SIRTLCDKLRKERDRAVSDLAEALRDSDNIKK 67 (93)
Q Consensus 36 SirtLCd~LRkERD~AvS~la~AiRd~Ddi~k 67 (93)
++|..-|.+-+++.++..++..+-...++++.
T Consensus 58 ~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~ 89 (312)
T PF00038_consen 58 ELRRQIDDLSKEKARLELEIDNLKEELEDLRR 89 (312)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHH
Confidence 33444444444444444444444333333333
No 69
>PRK10404 hypothetical protein; Provisional
Probab=23.92 E-value=2.4e+02 Score=19.21 Aligned_cols=15 Identities=20% Similarity=0.304 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHHHH
Q psy3837 73 SKELKVLKEKMEAQV 87 (93)
Q Consensus 73 ~kel~~lKEk~e~q~ 87 (93)
..++..|++++++.+
T Consensus 33 ~e~~~~lR~r~~~~L 47 (101)
T PRK10404 33 DQKYVELKARAEKAL 47 (101)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444444443
No 70
>cd07623 BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 1 and 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX1, SNX2, and similar proteins. SNX1 and SNX2 are components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), wh
Probab=23.75 E-value=3.1e+02 Score=20.31 Aligned_cols=62 Identities=18% Similarity=0.319 Sum_probs=35.1
Q ss_pred hhhhhHHHHHHHHhHHHHHHHHHHHHhH---H-----HHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHHHH
Q psy3837 23 AFSERDKIVLERESIRTLCDKLRKERDR---A-----VSDLAEALRDSDNIKKQKNETSKELKVLKEKMEAQV 87 (93)
Q Consensus 23 AfsERdKIV~EReSirtLCd~LRkERD~---A-----vS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q~ 87 (93)
+|+.|-++++.-. +++..|-+-|.+ . ..++..+-.+..+.......+.++.+.+.+.+..++
T Consensus 114 ~f~~R~~a~~~~q---~a~~~l~kkr~~~~Kl~~~~~~~K~~~~~~ev~~~e~~~~~a~~~fe~is~~~k~El 183 (224)
T cd07623 114 VFHERVKVWQNWQ---NAQQTLTKKREAKAKLELSGRTDKLDQAQQEIKEWEAKVDRGQKEFEEISKTIKKEI 183 (224)
T ss_pred HHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6888888876543 445555554443 1 123444555555555556666666666666665444
No 71
>cd08325 CARD_CASP1-like Caspase activation and recruitment domain found in Caspase-1 and related proteins. Caspase activation and recruitment domain (CARD) similar to those found in Caspase-1 (CASP1, ICE) and related proteins, including CARD-only proteins such as ICEBERG or CARD18, INCA (CARD17), CARD16 (COP1, PSEUDO-ICE), CARD8 (DACAR, NDPP1, TUCAN), and CARD12 (NLRC4), as well as ICE-like caspases such as CASP12, CASP5 (ICH-3) and CASP4 (TX, ICH-2). Caspases are aspartate-specific cysteine proteases with functions in apoptosis and immune signaling. CASP1 plays a central role in the cellular response to a wide variety of microbial and non-microbial stimuli, being activated by the inflammasome or the pyroptosome. CARD8 binds itself and the initiator caspase-9, interfering with the binding of APAF-1 and suppressing caspase-9 activation. CARD12 is a Nod-like receptor (NLR) that plays an important role in the innate immune response to Gram-negative bacteria. Caspase-4 (CASP4), -5 (CASP5),
Probab=23.67 E-value=2.1e+02 Score=18.43 Aligned_cols=39 Identities=26% Similarity=0.304 Sum_probs=32.3
Q ss_pred hhHHHHHH----HHhHHHHHHHHHHHHhHHHHHHHHHhhhhhH
Q psy3837 26 ERDKIVLE----RESIRTLCDKLRKERDRAVSDLAEALRDSDN 64 (93)
Q Consensus 26 ERdKIV~E----ReSirtLCd~LRkERD~AvS~la~AiRd~Dd 64 (93)
|-++|-.+ ++--|.|.|.+.+--+.|.+-+..+|.+.|-
T Consensus 35 E~e~i~~~~~t~~dkar~Lid~v~~KG~~A~~iF~~~L~~~d~ 77 (83)
T cd08325 35 EMEKIKEENNTIMDKARVLVDSVTEKGQEAGQIFIKHLLNRDK 77 (83)
T ss_pred HHHHHHhccCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCh
Confidence 55666663 5667899999999999999999999998874
No 72
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=23.22 E-value=2e+02 Score=18.01 Aligned_cols=51 Identities=25% Similarity=0.409 Sum_probs=35.4
Q ss_pred HHhHHHHHHHHHHHHh-HHHH---HHHHHhhhhhHHHHhhhHHHHHHHHHHHHHH
Q psy3837 34 RESIRTLCDKLRKERD-RAVS---DLAEALRDSDNIKKQKNETSKELKVLKEKME 84 (93)
Q Consensus 34 ReSirtLCd~LRkERD-~AvS---~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e 84 (93)
..+|..+...|+...+ ..+. +++.-.....+++|....+..-++.++.++.
T Consensus 34 ~~~i~~~~~~L~~~~~~~~~~~~~~~~~y~~KL~~ikkrm~~l~~~l~~lk~R~~ 88 (92)
T PF14712_consen 34 LQQIDRLNEKLKELNEVEQINEPFDLDPYVKKLVNIKKRMSNLHERLQKLKKRAD 88 (92)
T ss_pred HHHHHHHHHHHHHHHHhhhhhhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567888888887776 4444 3344666777778888888777777777654
No 73
>PF05929 Phage_GPO: Phage capsid scaffolding protein (GPO) serine peptidase; InterPro: IPR009228 This entry is represented by Bacteriophage P2, GpO. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several bacteriophage capsid scaffolding protein (GpO) and some related bacterial sequences. GpO is thought to function in both the assembly of proheads and the cleavage of GpN [].; GO: 0019069 viral capsid assembly
Probab=23.07 E-value=3.1e+02 Score=22.08 Aligned_cols=54 Identities=13% Similarity=0.356 Sum_probs=30.7
Q ss_pred HHhHHHHHHHHHHHHhHH---HHHHHHHhhh-hhHHHHhhhHHHHHHHHHHHHHHHHH
Q psy3837 34 RESIRTLCDKLRKERDRA---VSDLAEALRD-SDNIKKQKNETSKELKVLKEKMEAQV 87 (93)
Q Consensus 34 ReSirtLCd~LRkERD~A---vS~la~AiRd-~Ddi~kqk~ea~kel~~lKEk~e~q~ 87 (93)
.++|-.++...-..=+.. .+....++-+ ..++..+.+.+..++.+||++|+.+-
T Consensus 198 ~~ave~ia~~~~~~~~~~~~~ls~~~~~~~~~~~~l~~~~~~~~~~f~~L~~~L~~~~ 255 (276)
T PF05929_consen 198 QQAVEAIAEQQQELEEAFEEQLSEQETQVAELKQELKEQHEALTEDFAALKEKLSSTD 255 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhCCC
Confidence 355666666555322221 2222222222 34555667888999999999997653
No 74
>PRK03100 sec-independent translocase; Provisional
Probab=23.04 E-value=3e+02 Score=20.16 Aligned_cols=36 Identities=31% Similarity=0.410 Sum_probs=20.1
Q ss_pred HhHHHHHHHHHHHHhHHHHHHHHHhhh-----hhHHHHhhhH
Q psy3837 35 ESIRTLCDKLRKERDRAVSDLAEALRD-----SDNIKKQKNE 71 (93)
Q Consensus 35 eSirtLCd~LRkERD~AvS~la~AiRd-----~Ddi~kqk~e 71 (93)
+.+|+|..-+|+-| +++++.-..+++ .||++++..+
T Consensus 28 ~~~r~lG~~vr~~R-~~~~~~~~~~~~elg~e~~dlrk~l~e 68 (136)
T PRK03100 28 GAIRWTARALRQAR-DYASGATSQLREELGPEFDDLRKPLGE 68 (136)
T ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 45677777777766 355555544443 4555554443
No 75
>PF14738 PaaSYMP: Solute carrier (proton/amino acid symporter), TRAMD3 or PAT1
Probab=22.94 E-value=2.3e+02 Score=20.83 Aligned_cols=8 Identities=50% Similarity=1.365 Sum_probs=4.4
Q ss_pred hhhhhhhh
Q psy3837 20 RDWAFSER 27 (93)
Q Consensus 20 RDWAfsER 27 (93)
+.|||=|.
T Consensus 87 ~EW~~RE~ 94 (154)
T PF14738_consen 87 KEWAFREE 94 (154)
T ss_pred HHHHHHHH
Confidence 45666554
No 76
>PF14294 DUF4372: Domain of unknown function (DUF4372)
Probab=22.80 E-value=46 Score=21.61 Aligned_cols=30 Identities=33% Similarity=0.380 Sum_probs=21.9
Q ss_pred hhhhhhhhhHHHH-------HHHHhHHHHHHHHHHHH
Q psy3837 19 RRDWAFSERDKIV-------LERESIRTLCDKLRKER 48 (93)
Q Consensus 19 rRDWAfsERdKIV-------~EReSirtLCd~LRkER 48 (93)
+.-+-|+-.+-+| ..|+|+|.+++.|.-.-
T Consensus 30 ~~~k~f~~~~ql~~mlfaQL~~~~SLRdI~~~l~a~~ 66 (76)
T PF14294_consen 30 RYVKKFTCWDQLVAMLFAQLTGRESLRDIEDCLNAHS 66 (76)
T ss_pred CCCCCCCHHHHHHHHHHHHHcccCcHHHHHHHHHHhH
Confidence 3455666666655 58999999999997654
No 77
>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=22.19 E-value=5.7e+02 Score=22.80 Aligned_cols=38 Identities=29% Similarity=0.366 Sum_probs=32.6
Q ss_pred HHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHH
Q psy3837 46 KERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKM 83 (93)
Q Consensus 46 kERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~ 83 (93)
..||+..++|-.|.-..++++.|..+++-+|++-+.+.
T Consensus 318 ~~RDrt~aeLh~aRLe~aql~~qLad~~l~lke~~~q~ 355 (546)
T PF07888_consen 318 NVRDRTMAELHQARLEAAQLKLQLADASLELKEGRSQW 355 (546)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 36899999999999999999999999999888776544
No 78
>PRK05689 fliJ flagellar biosynthesis chaperone; Validated
Probab=22.05 E-value=2.6e+02 Score=18.83 Aligned_cols=48 Identities=17% Similarity=0.209 Sum_probs=34.1
Q ss_pred hHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHH
Q psy3837 36 SIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKM 83 (93)
Q Consensus 36 SirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~ 83 (93)
++.++.+--.++.|.|-..||.+....+....+.+.+.....+.-..+
T Consensus 6 rL~~vl~l~~~~ee~a~~~la~a~~~~~~~~~~L~~L~~y~~~y~~~~ 53 (147)
T PRK05689 6 ALATLLDLAEKAEEQAALQLGQARQELQQAEQQLKMLEDYRLEYRQQL 53 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666666678888888888888888877777777766665555444
No 79
>cd09243 BRO1_Brox_like Protein-interacting Bro1-like domain of human Brox1 and related proteins. This family contains the Bro1-like domain of a single-domain protein, human Brox, and related domains. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-like structure. Bro1-like domains bind components of the ESCRT-III complex: CHMP4 in the case of Brox. Human Brox can bind to human immunodeficiency virus type 1 (
Probab=22.02 E-value=1.1e+02 Score=24.86 Aligned_cols=38 Identities=29% Similarity=0.448 Sum_probs=28.5
Q ss_pred HhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHH
Q psy3837 35 ESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNET 72 (93)
Q Consensus 35 eSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea 72 (93)
.+.+.||..||..|++.+.-+-.+--+.+++++-.++-
T Consensus 24 ~~~~~~~~~~~~~r~~l~~~~~~~~~~~~~~~~a~~~Y 61 (353)
T cd09243 24 PAASKLCSDLRTARARLLELLSDPSNDVDTVKTAFNAY 61 (353)
T ss_pred hhHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Confidence 46789999999999987776666666667666655543
No 80
>PF01093 Clusterin: Clusterin; InterPro: IPR000753 Clusterin is a vertebrate glycoprotein [], the exact function of which is not yet clear. Clusterin expression is complex, appearing as different forms in different cell compartments. One set of proteins is directed for secretion, and other clusterin species are expressed in the cytoplasm and nucleus. The secretory form of the clusterin protein (sCLU) is targeted to the ER by an initial leader peptide. This ~60kDa pre-sCLU protein is further glycosylated and proteolytically cleaved into alpha- and beta-subunits, held together by disulphide bonds. External sCLU is an 80kDa protein and may act as a molecular chaperone, scavenging denatured proteins outside cells following specific stress-induced injury such as heat shock. sCLU possesses nonspecific binding activity to hydrophobic domains of various proteins in vitro []. A specific nuclear form of CLU (nCLU) acts as a pro-death signal, inhibiting cell growth and survival. The nCLU protein has two coiled-coil domains, one at its N terminus that is unable to bind Ku70, and a C-terminal coiled-coil domain that is uniquely able to associate with Ku70 and is minimally required for cell death. Clusterin is synthesized as a precursor polypeptide of about 400 amino acids which is post-translationally cleaved to form two subunits of about 200 amino acids each. The two subunits are linked by five disulphide bonds to form an antiparallel ladder-like structure []. In each of the mature subunits the five cysteines that are involved in disulphide bonds are clustered in domains of about 30 amino acids located in the central part of the subunits. This entry represents the clusterin precursor and related proteins.; GO: 0008219 cell death
Probab=21.86 E-value=4e+02 Score=22.95 Aligned_cols=31 Identities=35% Similarity=0.467 Sum_probs=23.0
Q ss_pred HHHHHhhhhhHHHHhhhHHHHHHHHHHHHHHHHH
Q psy3837 54 DLAEALRDSDNIKKQKNETSKELKVLKEKMEAQV 87 (93)
Q Consensus 54 ~la~AiRd~Ddi~kqk~ea~kel~~lKEk~e~q~ 87 (93)
.|..+|+.+ ++||.+|.+..++..++|+..-
T Consensus 41 ~Lm~tL~k~---kk~KeeAl~l~~e~e~kLee~e 71 (436)
T PF01093_consen 41 ELMKTLEKS---KKEKEEALKLANEVEEKLEEEE 71 (436)
T ss_pred HHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444 7899999999999999997643
No 81
>PF09712 PHA_synth_III_E: Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
Probab=21.04 E-value=2.2e+02 Score=22.46 Aligned_cols=38 Identities=29% Similarity=0.522 Sum_probs=28.1
Q ss_pred HHHHHHhHHHHHHHHHh-----hhhhHHHHhhhHHHHHHHHHH
Q psy3837 43 KLRKERDRAVSDLAEAL-----RDSDNIKKQKNETSKELKVLK 80 (93)
Q Consensus 43 ~LRkERD~AvS~la~Ai-----Rd~Ddi~kqk~ea~kel~~lK 80 (93)
.||+.-+..+-..+..+ .+-|++.|+.-++.+++..||
T Consensus 250 ~~r~~~~~~~e~~L~~l~lPTr~evd~l~k~l~eLrre~r~Lk 292 (293)
T PF09712_consen 250 DLRKQQQEVVEEYLRSLNLPTRSEVDELYKRLHELRREVRALK 292 (293)
T ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence 46778888887777765 567777777777777777665
No 82
>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat. Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei
Probab=21.03 E-value=92 Score=21.52 Aligned_cols=36 Identities=22% Similarity=0.442 Sum_probs=29.7
Q ss_pred hHHHHHH------HHhHHHHHHHHHHHHhHHHHHHHHHhhhhh
Q psy3837 27 RDKIVLE------RESIRTLCDKLRKERDRAVSDLAEALRDSD 63 (93)
Q Consensus 27 RdKIV~E------ReSirtLCd~LRkERD~AvS~la~AiRd~D 63 (93)
++.|-.+ ++..++|-+.|. ...+|.|....|+|+..
T Consensus 39 ~e~I~aa~~~~g~~~~ar~LL~~L~-rg~~aF~~Fl~aLreT~ 80 (88)
T cd08819 39 RNRIEAATENHGNESGARELLKRIV-QKEGWFSKFLQALRETE 80 (88)
T ss_pred HHHHHHhccccCcHHHHHHHHHHhc-cCCcHHHHHHHHHHHcC
Confidence 4455554 456899999999 89999999999999875
No 83
>PF05055 DUF677: Protein of unknown function (DUF677); InterPro: IPR007749 This entry contains proteins belonging to the UPF0496 family, found in plants. This family includes AT14A like proteins from Arabidopsis thaliana. At14a contains a small domain that has sequence similarities to integrins from fungi, insects and humans. Transcripts of At14a are found in all Arabidopsis tissues and the protein localises partly to the plasma membrane [].
Probab=20.95 E-value=4.7e+02 Score=21.40 Aligned_cols=51 Identities=22% Similarity=0.348 Sum_probs=25.3
Q ss_pred HHhHHHHHHHHHHHHhHHHHHHHHHhhhhh---HHHHhhhHHHHHHHHHHHHHH
Q psy3837 34 RESIRTLCDKLRKERDRAVSDLAEALRDSD---NIKKQKNETSKELKVLKEKME 84 (93)
Q Consensus 34 ReSirtLCd~LRkERD~AvS~la~AiRd~D---di~kqk~ea~kel~~lKEk~e 84 (93)
=+.|+.|-++|.-+=.-...-.--|++..+ .++-=..+..|....|.++|+
T Consensus 259 ldTIsrLV~RL~deIE~~~~~v~fave~~~d~~~vk~vv~el~k~~~~f~~qle 312 (336)
T PF05055_consen 259 LDTISRLVDRLEDEIEHMKALVDFAVERGEDEEAVKEVVKELKKNVESFTEQLE 312 (336)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHhHHHHHHHHH
Confidence 356777777776644333333333444444 233334444444555555553
No 84
>PF14142 YrzO: YrzO-like protein
Probab=20.81 E-value=1.8e+02 Score=18.31 Aligned_cols=31 Identities=35% Similarity=0.369 Sum_probs=22.9
Q ss_pred HHHHHHHhhhhhHHHHhhhHHHHHHHHHHHH
Q psy3837 52 VSDLAEALRDSDNIKKQKNETSKELKVLKEK 82 (93)
Q Consensus 52 vS~la~AiRd~Ddi~kqk~ea~kel~~lKEk 82 (93)
+-+||..=|+.-.--||..+.-.=|+++||+
T Consensus 14 acelaainrngrk~ikqqaeliqllkel~er 44 (46)
T PF14142_consen 14 ACELAAINRNGRKKIKQQAELIQLLKELKER 44 (46)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHc
Confidence 3467877888887777777777777777764
No 85
>cd07665 BAR_SNX1 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX1 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=20.52 E-value=4.1e+02 Score=20.58 Aligned_cols=30 Identities=27% Similarity=0.272 Sum_probs=20.9
Q ss_pred hhhhhHHHHHHHHhHHHHHHHHHHHHhHHHHHHH
Q psy3837 23 AFSERDKIVLERESIRTLCDKLRKERDRAVSDLA 56 (93)
Q Consensus 23 AfsERdKIV~EReSirtLCd~LRkERD~AvS~la 56 (93)
||++|-|+.+ +..+++..|.+-|.. ..+|.
T Consensus 124 ~f~~R~k~~~---~~~~~~~~l~kKr~~-~~Kl~ 153 (234)
T cd07665 124 AFDQRMKTWQ---RWQDAQAMLQKKREA-EARLL 153 (234)
T ss_pred HHHHHHHHHH---HHHHHHHHHHHHHHH-HHHHH
Confidence 7889988875 566778888775554 44443
No 86
>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins. The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction
Probab=20.50 E-value=3.6e+02 Score=19.93 Aligned_cols=53 Identities=21% Similarity=0.423 Sum_probs=42.9
Q ss_pred hHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHH
Q psy3837 27 RDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVL 79 (93)
Q Consensus 27 RdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~l 79 (93)
++.|..=.|+.|+=|+.|++|-...-..++..|-..|.+.+.--.+...|-+.
T Consensus 15 K~qIf~I~E~~R~E~~~l~~EL~evk~~v~~~I~evD~Le~~er~aR~rL~eV 67 (159)
T PF05384_consen 15 KEQIFEIAEQARQEYERLRKELEEVKEEVSEVIEEVDKLEKRERQARQRLAEV 67 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788889999999999999999999999999999998776655555555443
No 87
>KOG1962|consensus
Probab=20.25 E-value=4.4e+02 Score=20.77 Aligned_cols=55 Identities=27% Similarity=0.416 Sum_probs=41.0
Q ss_pred HHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHH---HHHHHHH
Q psy3837 34 RESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKE---KMEAQVE 88 (93)
Q Consensus 34 ReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKE---k~e~q~e 88 (93)
=++...=-..|+.+=..-.++|-.|.-+.+.++||-++..+|.+.|.| ++.+|++
T Consensus 153 ~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~i~ 210 (216)
T KOG1962|consen 153 NDKLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQIE 210 (216)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHh
Confidence 334444344566666666788999999999999999999999999885 4666664
No 88
>PRK06851 hypothetical protein; Provisional
Probab=20.18 E-value=5e+02 Score=21.41 Aligned_cols=61 Identities=23% Similarity=0.252 Sum_probs=47.8
Q ss_pred hHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHH--HHHHHHHHHHHHHHH
Q psy3837 27 RDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNET--SKELKVLKEKMEAQV 87 (93)
Q Consensus 27 RdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea--~kel~~lKEk~e~q~ 87 (93)
-+++-..++-|..+....-.-..+|.+-|+.|++=-||..+--.+. ...++++.+.+-+.+
T Consensus 114 ~~~l~~~k~eI~~~~~~~~~~~~~Ay~~l~~A~~ihdd~e~~y~~~md~~k~~~~~~~l~~~l 176 (367)
T PRK06851 114 EDKLRKHKEEILKINEEISRCFQRAYEYLNEALAIHDEWEKIYIENMDFAKANELTDELIQEL 176 (367)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence 3567788888999999999999999999999999999887765444 456666666665554
No 89
>PF06881 Elongin_A: RNA polymerase II transcription factor SIII (Elongin) subunit A; InterPro: IPR010684 This family represents a conserved region within RNA polymerase II transcription factor SIII (Elongin) subunit A. In mammals, the Elongin complex activates elongation by RNA polymerase II by suppressing transient pausing of the polymerase at many sites within transcription units. Elongin is a heterotrimer composed of A, B, and C subunits of 110, 18, and 15 kilodaltons, respectively. Subunit A has been shown to function as the transcriptionally active component of Elongin [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus, 0016021 integral to membrane
Probab=20.17 E-value=1.5e+02 Score=19.66 Aligned_cols=45 Identities=33% Similarity=0.489 Sum_probs=33.1
Q ss_pred hhhhhhhhhhHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhh
Q psy3837 18 RRRDWAFSERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDS 62 (93)
Q Consensus 18 rrRDWAfsERdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~ 62 (93)
..||.--........+.+|.+.+=.++.++++......+..|+..
T Consensus 46 i~rdFp~~~~~~~~~~~~~Wr~~Y~~~~~e~e~~~~~~~~~L~~~ 90 (109)
T PF06881_consen 46 IKRDFPEESKRQKPKEPESWRELYEKLKKEREEKLKEATERLRKK 90 (109)
T ss_pred HHhHCcChhhcccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345554444556677778999999999999999987666666543
No 90
>PF10481 CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR018463 Mitosin or centromere-associated protein-F (Cenp-F) is found bound across the centromere as one of the proteins of the outer layer of the kinetochore []. Most of the kinetochore/centromere functions appear to depend upon binding of the C-terminal part of the molecule, whereas the N-terminal part, here, may be a cytoplasmic player in controlling the function of microtubules and dynein [].
Probab=20.08 E-value=5.3e+02 Score=21.70 Aligned_cols=55 Identities=29% Similarity=0.400 Sum_probs=38.7
Q ss_pred HHHHHHhHHHHHHHHHHHHhHHHHHHHHHhh-------hhhHHHHhhhHHHHHHHHHHHHHH
Q psy3837 30 IVLERESIRTLCDKLRKERDRAVSDLAEALR-------DSDNIKKQKNETSKELKVLKEKME 84 (93)
Q Consensus 30 IV~EReSirtLCd~LRkERD~AvS~la~AiR-------d~Ddi~kqk~ea~kel~~lKEk~e 84 (93)
+-.|.-|+...|++|=+-|++..-+|..-=- -....++|.+-+.-+|+.+|..||
T Consensus 65 LkREnq~l~e~c~~lek~rqKlshdlq~Ke~qv~~lEgQl~s~Kkqie~Leqelkr~KsELE 126 (307)
T PF10481_consen 65 LKRENQSLMESCENLEKTRQKLSHDLQVKESQVNFLEGQLNSCKKQIEKLEQELKRCKSELE 126 (307)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhhHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456778999999999999998777643211 123456777777777887777665
No 91
>KOG3977|consensus
Probab=20.07 E-value=3.2e+02 Score=22.06 Aligned_cols=52 Identities=25% Similarity=0.386 Sum_probs=31.1
Q ss_pred hhhHHHHHHH-------Hh------HHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHHHH
Q psy3837 25 SERDKIVLER-------ES------IRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKEKM 83 (93)
Q Consensus 25 sERdKIV~ER-------eS------irtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKEk~ 83 (93)
.||.++++|| +| +-.||+.|.--=+.+-+ ..=||.-.-..+..||++|.-++
T Consensus 68 qErqr~LaeR~i~lp~~d~l~d~g~Lq~ly~~l~arv~~leE-------EkYDi~~~v~qt~~EIndLtikv 132 (221)
T KOG3977|consen 68 QERQRYLAERTIPLPDVDSLDDRGLLQDLYRELHARVDALEE-------EKYDIEAKVTQTETEINDLTIKV 132 (221)
T ss_pred HHHHHHHHHccCCCCCCCcccchHHHHHHHHHHHHHHHHHHH-------hhcchhheeehhhhhHHHHHHHH
Confidence 5888999999 33 56688888653332222 22344444455666777766554
Done!