Query psy13000
Match_columns 65
No_of_seqs 110 out of 196
Neff 4.5
Searched_HMMs 46136
Date Fri Aug 16 16:37:57 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13000.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13000hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1656|consensus 99.9 9.1E-26 2E-30 160.2 7.5 64 1-64 1-66 (221)
2 PTZ00446 vacuolar sorting prot 99.5 1.8E-14 3.9E-19 100.6 7.1 58 6-63 3-71 (191)
3 PTZ00464 SNF-7-like protein; P 99.0 1.5E-09 3.2E-14 76.5 6.6 55 5-63 2-65 (211)
4 PF03357 Snf7: Snf7; InterPro 96.8 0.0044 9.5E-08 39.9 5.3 43 20-62 1-44 (171)
5 PF10115 HlyU: Transcriptional 94.9 0.007 1.5E-07 38.5 -0.1 15 1-15 1-15 (91)
6 COG5453 Uncharacterized conser 94.7 0.01 2.2E-07 38.2 0.3 12 1-12 1-12 (96)
7 KOG2910|consensus 92.8 0.63 1.4E-05 33.5 6.7 57 5-62 2-59 (209)
8 KOG1655|consensus 90.0 1.8 4E-05 31.3 6.6 36 5-40 2-39 (218)
9 PRK09343 prefoldin subunit bet 85.1 3.3 7.1E-05 26.6 5.1 43 19-61 77-120 (121)
10 PRK13989 cell division topolog 84.1 0.47 1E-05 29.4 0.8 11 1-11 1-11 (84)
11 KOG2911|consensus 80.3 5.4 0.00012 31.6 5.5 46 18-63 231-277 (439)
12 PRK13991 cell division topolog 80.1 2.1 4.6E-05 26.8 2.6 50 1-54 1-54 (87)
13 PF10393 Matrilin_ccoil: Trime 76.7 9.9 0.00021 21.4 4.5 26 18-43 21-46 (47)
14 COG0851 MinE Septum formation 73.8 1.9 4.2E-05 27.3 1.2 18 1-18 1-18 (88)
15 PF09803 DUF2346: Uncharacteri 73.3 13 0.00029 22.8 4.8 32 15-48 47-78 (80)
16 KOG3501|consensus 73.1 11 0.00023 25.0 4.6 29 24-52 78-106 (114)
17 TIGR01215 minE cell division t 71.4 4.9 0.00011 24.5 2.6 23 1-26 1-23 (81)
18 PRK10698 phage shock protein P 67.1 22 0.00048 25.0 5.5 21 1-21 1-28 (222)
19 PHA01750 hypothetical protein 65.0 20 0.00044 22.1 4.3 26 20-45 42-67 (75)
20 TIGR02977 phageshock_pspA phag 63.6 27 0.00058 24.2 5.3 22 1-22 1-29 (219)
21 PF12329 TMF_DNA_bd: TATA elem 63.5 29 0.00063 20.6 5.1 31 19-49 32-62 (74)
22 PF02346 Vac_Fusion: Chordopox 62.9 12 0.00027 21.8 3.0 30 17-46 26-55 (57)
23 PRK00296 minE cell division to 60.6 3.2 7E-05 25.7 0.3 24 1-27 1-24 (86)
24 COG5570 Uncharacterized small 59.7 14 0.00031 21.7 2.9 23 25-47 3-25 (57)
25 PF08569 Mo25: Mo25-like; Int 57.6 47 0.001 24.9 6.0 45 7-54 4-52 (335)
26 PF10679 DUF2491: Protein of u 57.4 4.8 0.0001 28.8 0.7 8 3-10 1-8 (212)
27 PF04521 Viral_P18: ssRNA posi 57.1 33 0.00072 22.9 4.6 30 22-51 74-103 (120)
28 TIGR02338 gimC_beta prefoldin, 56.8 45 0.00098 20.7 5.7 35 18-52 72-106 (110)
29 COG1382 GimC Prefoldin, chaper 56.5 34 0.00074 22.6 4.6 29 17-45 67-95 (119)
30 PF02996 Prefoldin: Prefoldin 53.4 42 0.00092 20.4 4.5 29 17-45 74-102 (120)
31 PF13758 Prefoldin_3: Prefoldi 52.6 60 0.0013 20.9 6.5 40 7-46 55-94 (99)
32 PF03836 RasGAP_C: RasGAP C-te 52.4 4.7 0.0001 26.3 0.0 27 19-45 50-76 (142)
33 PF02344 Myc-LZ: Myc leucine z 52.2 35 0.00076 18.0 4.0 23 23-45 4-26 (32)
34 PF04380 BMFP: Membrane fusoge 49.1 28 0.00061 20.8 3.1 23 19-41 56-78 (79)
35 PF14971 DUF4510: Domain of un 47.9 74 0.0016 22.3 5.4 33 17-49 116-148 (163)
36 PF15361 RIC3: Resistance to i 47.2 16 0.00036 24.6 2.0 12 23-34 138-149 (152)
37 PF03234 CDC37_N: Cdc37 N term 46.1 82 0.0018 21.8 5.4 39 17-55 128-166 (177)
38 KOG4460|consensus 45.4 45 0.00098 27.9 4.6 31 18-48 600-630 (741)
39 cd00890 Prefoldin Prefoldin is 45.3 69 0.0015 19.5 4.8 30 16-45 83-112 (129)
40 KOG2577|consensus 43.8 96 0.0021 24.0 5.9 54 7-60 131-186 (354)
41 PF04568 IATP: Mitochondrial A 43.0 75 0.0016 20.3 4.5 9 22-30 74-82 (100)
42 PRK05892 nucleoside diphosphat 41.6 89 0.0019 20.9 4.9 37 14-54 5-41 (158)
43 PF08153 NGP1NT: NGP1NT (NUC09 39.7 21 0.00046 23.9 1.7 23 5-30 35-57 (130)
44 PHA00442 host recBCD nuclease 39.0 58 0.0013 19.3 3.2 25 16-40 9-33 (59)
45 PF14712 Snapin_Pallidin: Snap 37.7 87 0.0019 18.4 5.3 32 21-52 15-46 (92)
46 PRK05771 V-type ATP synthase s 37.2 1.2E+02 0.0026 24.1 5.7 34 15-48 210-243 (646)
47 PF12537 DUF3735: Protein of u 36.7 54 0.0012 19.2 2.9 24 16-39 48-71 (72)
48 PF01496 V_ATPase_I: V-type AT 36.7 1.2E+02 0.0026 24.6 5.7 35 15-49 224-258 (759)
49 PRK13987 cell division topolog 36.6 39 0.00085 21.2 2.4 8 1-8 1-8 (91)
50 PRK03947 prefoldin subunit alp 36.3 1.1E+02 0.0025 19.3 4.8 29 17-45 91-119 (140)
51 PF13600 DUF4140: N-terminal d 36.0 99 0.0021 18.5 5.2 32 16-47 66-97 (104)
52 PF10130 PIN_2: PIN domain; I 35.6 82 0.0018 20.5 3.9 38 17-54 31-68 (133)
53 PF06476 DUF1090: Protein of u 34.9 38 0.00083 21.8 2.2 21 42-62 28-48 (115)
54 cd00584 Prefoldin_alpha Prefol 34.8 1.1E+02 0.0025 18.9 4.7 29 17-45 84-112 (129)
55 PF15477 SMAP: Small acidic pr 34.6 59 0.0013 18.9 2.8 45 4-54 17-61 (69)
56 KOG0946|consensus 34.2 46 0.00099 28.9 3.1 39 1-39 1-44 (970)
57 PF03670 UPF0184: Uncharacteri 34.1 1.2E+02 0.0026 18.9 5.2 31 21-51 34-64 (83)
58 COG5211 SSU72 RNA polymerase I 33.6 1.5E+02 0.0032 21.2 5.2 37 13-49 141-180 (197)
59 PRK13729 conjugal transfer pil 33.0 1.3E+02 0.0028 24.2 5.3 31 21-51 84-114 (475)
60 PRK13988 cell division topolog 32.8 37 0.00079 21.6 1.8 10 1-10 4-13 (97)
61 PHA02571 a-gt.4 hypothetical p 32.8 94 0.002 20.4 3.8 29 29-60 17-45 (109)
62 KOG1760|consensus 32.3 1.2E+02 0.0026 20.6 4.3 27 24-50 78-104 (131)
63 PF11819 DUF3338: Domain of un 31.9 1.4E+02 0.0031 20.2 4.7 32 21-52 26-57 (138)
64 PF10205 KLRAQ: Predicted coil 31.4 1.5E+02 0.0032 19.2 5.3 26 20-45 40-65 (102)
65 PF15397 DUF4618: Domain of un 31.4 1.9E+02 0.0042 21.3 5.6 35 15-49 62-96 (258)
66 PF04340 DUF484: Protein of un 31.0 1.2E+02 0.0026 20.7 4.4 36 20-55 40-75 (225)
67 cd04776 HTH_GnyR Helix-Turn-He 30.8 84 0.0018 19.7 3.3 22 22-43 82-103 (118)
68 PF15235 GRIN_C: G protein-reg 30.6 39 0.00085 23.0 1.8 11 36-46 73-83 (137)
69 PF08657 DASH_Spc34: DASH comp 30.5 1.5E+02 0.0034 21.6 5.0 37 15-51 175-211 (259)
70 PRK10963 hypothetical protein; 30.0 1.2E+02 0.0026 21.0 4.2 34 21-54 38-71 (223)
71 KOG1566|consensus 29.9 1.1E+02 0.0023 23.8 4.2 39 7-48 4-42 (342)
72 PF14703 DUF4463: Domain of un 29.7 40 0.00086 19.3 1.5 15 18-32 70-84 (85)
73 PF09548 Spore_III_AB: Stage I 29.4 1.1E+02 0.0023 20.4 3.8 43 18-60 106-153 (170)
74 PF05600 DUF773: Protein of un 29.1 1.6E+02 0.0036 23.3 5.2 34 16-49 463-496 (507)
75 PF15458 NTR2: Nineteen comple 28.4 1.6E+02 0.0035 21.1 4.8 32 14-45 202-233 (254)
76 PF07860 CCD: WisP family C-Te 27.9 21 0.00046 24.0 0.1 8 4-11 59-66 (141)
77 PRK14011 prefoldin subunit alp 27.5 1.9E+02 0.0042 19.3 5.9 33 16-48 84-116 (144)
78 PF04977 DivIC: Septum formati 27.3 1.2E+02 0.0026 16.8 4.5 26 20-45 24-49 (80)
79 PF04859 DUF641: Plant protein 26.9 64 0.0014 21.5 2.3 8 3-10 59-66 (131)
80 PF08946 Osmo_CC: Osmosensory 26.6 1.3E+02 0.0028 17.0 3.6 26 20-45 5-30 (46)
81 TIGR00293 prefoldin, archaeal 26.1 1.7E+02 0.0036 18.1 4.8 30 16-45 82-111 (126)
82 PF11853 DUF3373: Protein of u 25.8 83 0.0018 25.3 3.1 22 22-44 27-48 (489)
83 PF03681 UPF0150: Uncharacteri 25.2 1.1E+02 0.0023 16.0 2.6 18 14-31 27-44 (48)
84 PTZ00464 SNF-7-like protein; P 25.1 2.1E+02 0.0045 20.2 4.7 22 24-45 15-36 (211)
85 PRK12855 hypothetical protein; 24.8 33 0.00071 21.9 0.6 10 2-11 37-46 (103)
86 PF10400 Vir_act_alpha_C: Viru 24.1 1.5E+02 0.0033 16.9 5.2 29 15-43 16-44 (90)
87 PF10549 ORF11CD3: ORF11CD3 do 23.6 33 0.00071 19.9 0.4 29 4-32 21-53 (57)
88 KOG0353|consensus 23.3 1.3E+02 0.0028 24.7 3.7 27 20-46 25-51 (695)
89 PF11932 DUF3450: Protein of u 23.1 2.7E+02 0.0058 19.4 5.2 29 20-48 56-84 (251)
90 cd04777 HTH_MerR-like_sg1 Heli 23.1 1.7E+02 0.0037 17.7 3.6 22 26-47 80-101 (107)
91 cd04773 HTH_TioE_rpt2 Second H 23.0 1.9E+02 0.0042 17.7 4.2 25 28-52 79-103 (108)
92 cd04664 Nudix_Hydrolase_7 Memb 22.9 85 0.0018 18.8 2.2 26 3-28 28-54 (129)
93 PF14257 DUF4349: Domain of un 22.9 1.6E+02 0.0036 20.5 3.9 20 24-43 173-192 (262)
94 PF01920 Prefoldin_2: Prefoldi 22.7 1.7E+02 0.0037 17.0 4.7 26 18-43 60-85 (106)
95 PF10234 Cluap1: Clusterin-ass 22.7 3.2E+02 0.007 20.2 5.8 36 19-54 175-213 (267)
96 TIGR02698 CopY_TcrY copper tra 22.6 77 0.0017 20.3 2.0 27 3-29 80-114 (130)
97 PF08702 Fib_alpha: Fibrinogen 22.5 2.4E+02 0.0053 18.7 5.0 29 20-48 104-132 (146)
98 cd04772 HTH_TioE_rpt1 First He 22.4 1.5E+02 0.0032 18.0 3.2 19 27-45 76-94 (99)
99 KOG2008|consensus 22.2 2.1E+02 0.0046 22.6 4.6 36 19-54 37-72 (426)
100 PF06717 DUF1202: Protein of u 22.1 3.2E+02 0.0069 21.0 5.4 38 19-56 144-181 (308)
101 KOG2873|consensus 22.0 92 0.002 23.6 2.6 32 2-33 225-257 (284)
102 PF13314 DUF4083: Domain of un 22.0 1.3E+02 0.0029 17.7 2.8 22 13-34 36-57 (58)
103 PF06305 DUF1049: Protein of u 21.0 1.6E+02 0.0035 16.1 4.0 24 22-45 43-66 (68)
104 PF07332 DUF1469: Protein of u 20.9 1.5E+02 0.0032 18.1 3.0 20 14-33 100-119 (121)
105 PF15397 DUF4618: Domain of un 20.5 2.8E+02 0.0061 20.5 4.8 31 18-48 4-34 (258)
106 PF13870 DUF4201: Domain of un 20.4 2.5E+02 0.0055 18.4 4.2 27 18-44 150-176 (177)
107 PRK06342 transcription elongat 20.3 1.9E+02 0.0041 19.5 3.7 27 17-54 31-57 (160)
108 PRK13848 conjugal transfer pro 20.1 1.7E+02 0.0037 18.9 3.2 26 18-43 8-33 (98)
109 TIGR00586 mutt mutator mutT pr 20.0 1.5E+02 0.0032 17.5 2.8 20 4-23 32-51 (128)
110 KOG3088|consensus 20.0 2.5E+02 0.0054 21.6 4.5 22 24-45 61-82 (313)
No 1
>KOG1656|consensus
Probab=99.93 E-value=9.1e-26 Score=160.21 Aligned_cols=64 Identities=61% Similarity=0.789 Sum_probs=60.3
Q ss_pred CchhhhhhcCC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhcccchhhhhhc
Q psy13000 1 MSFFKNIFGKT-EEKGPTTGEAIQKLRETEDMLIKKQEFLEKKIGEEINI-ARTNGTKNKREFDHN 64 (65)
Q Consensus 1 Ms~~~~~FG~~-~~~~~~~~~aI~kLret~emL~KKe~~LekkI~~E~~~-AKk~~~kNKr~Al~~ 64 (65)
||+|++||||. +..+++|++||++||||++||+|||+||++||++|++. |++|++||||+|||.
T Consensus 1 ms~~~~~FG~~k~~~~~t~~eaI~kLrEteemL~KKqe~Le~ki~~e~e~~A~k~~tkNKR~Alqa 66 (221)
T KOG1656|consen 1 MSMFSRLFGGMKQEAKPTPQEAIQKLRETEEMLEKKQEFLEKKIEQEVENNARKYGTKNKRMALQA 66 (221)
T ss_pred CcHHHHHhCcccccCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence 89999999985 57889999999999999999999999999999999777 999999999999973
No 2
>PTZ00446 vacuolar sorting protein SNF7-like; Provisional
Probab=99.54 E-value=1.8e-14 Score=100.58 Aligned_cols=58 Identities=33% Similarity=0.240 Sum_probs=50.2
Q ss_pred hhhcCCCCCC----------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchh-hhhh
Q psy13000 6 NIFGKTEEKG----------PTTGEAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNGTKNKR-EFDH 63 (65)
Q Consensus 6 ~~FG~~~~~~----------~~~~~aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~~kNKr-~Al~ 63 (65)
.|||+++.+| .+|.+||.+||+++++|+||+.||+++|+.+...||+++.+||+ +|++
T Consensus 3 ~~fgk~~~~~~~~~~~~~~~~~~~~AIl~Lk~~~~~L~krq~~Le~kIe~e~~~Ak~~~~~~kk~~Al~ 71 (191)
T PTZ00446 3 FWFGKKKNSSECSDNKKKNNDEIYKAILKNREAIDALEKKQVQVEKKIKQLEIEAKQKVEQNQMSNAKI 71 (191)
T ss_pred cccCCCCCCCcchhhhhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHH
Confidence 4899643322 36999999999999999999999999999999999999988887 6764
No 3
>PTZ00464 SNF-7-like protein; Provisional
Probab=98.98 E-value=1.5e-09 Score=76.48 Aligned_cols=55 Identities=20% Similarity=0.326 Sum_probs=47.3
Q ss_pred hhhhcCCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--ccc------hhhhhh
Q psy13000 5 KNIFGKTE-EKGPTTGEAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNG--TKN------KREFDH 63 (65)
Q Consensus 5 ~~~FG~~~-~~~~~~~~aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~--~kN------Kr~Al~ 63 (65)
++|||+++ .+++++.+||..||+++++|+||. .+|+.|++.||+++ ++| |+.||+
T Consensus 2 ~rlFG~~k~~p~~t~~d~~~~l~~r~~~l~kKi----~~ld~E~~~ak~~~k~~~~~~~~~~K~~Al~ 65 (211)
T PTZ00464 2 NRLFGKKNKTPKPTLEDASKRIGGRSEVVDARI----NKIDAELMKLKEQIQRTRGMTQSRHKQRAMQ 65 (211)
T ss_pred ccccCCCCCCCCCCHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHhcchhhhHHHHHHHH
Confidence 67999854 578999999999999999999999 56999999999998 444 777775
No 4
>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7. The family contains human CHMP1. CHMP1 (CHromatin Modifying Protein; CHarged Multivesicular body Protein), is encoded by an alternative open reading frame in the PRSM1 gene [] and is conserved in both complex and simple eukaryotes. CHMP1 contains a predicted bipartite nuclear localisation signal and distributes as distinct forms to the cytoplasm and the nuclear matrix in all cell lines tested. Human CHMP1 is strongly implicated in multivesicular body formation. A multivesicular body is a vesicle-filled endosome that targets proteins to the interior of lysosomes. Immunocytochemistry and biochemical fractionation localise CHMP1 to early endosomes and CHMP1 physically interacts with SKD1/VPS4, a highly conserved protein directly linked to multivesicular body sorting in yeast. Similar to the action of a mutant SKD1 protein, over expression of a fusion derivative of human CHMP1 dilates endosomal compartments and disrupts the normal distribution of several endosomal markers. Genetic studies in Saccharomyces cerevisiae (Baker's yeast) further support a conserved role of CHMP1 in vesicle trafficking. Deletion of CHM1, the budding yeast homologue of CHMP1, results in defective sorting of carboxypeptidases S and Y and produces abnormal, multi-lamellar prevacuolar compartments. This phenotype classifies CHM1 as a member of the class E vacuolar protein sorting genes []. ; GO: 0015031 protein transport; PDB: 2V6X_B 2W2U_D 2GD5_D 3FRT_B 3FRV_A 4ABM_D 3EAB_H 3HTU_D.
Probab=96.78 E-value=0.0044 Score=39.89 Aligned_cols=43 Identities=35% Similarity=0.270 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccch-hhhh
Q psy13000 20 EAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNGTKNK-REFD 62 (65)
Q Consensus 20 ~aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~~kNK-r~Al 62 (65)
+||.+|+.+...|+++...|+.+|+.....|+++..++. ..|+
T Consensus 1 eai~~Lk~~~~~L~~~~~~le~~i~~~~~~~k~~~~~~~~~~A~ 44 (171)
T PF03357_consen 1 EAILKLKKTIRRLEKQIKRLEKKIKKLEKKAKKAIKKGNKERAK 44 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHCTT-HHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHH
Confidence 689999999999999999999999999999999995544 4554
No 5
>PF10115 HlyU: Transcriptional activator HlyU; InterPro: IPR018772 This is a family of hypothetical prokaryotic proteins, with no known function. One of the proteins in this entry corresponds to the transcriptional activator HlyU, indicating a possible similar role in other members.
Probab=94.87 E-value=0.007 Score=38.51 Aligned_cols=15 Identities=40% Similarity=0.818 Sum_probs=11.9
Q ss_pred CchhhhhhcCCCCCC
Q psy13000 1 MSFFKNIFGKTEEKG 15 (65)
Q Consensus 1 Ms~~~~~FG~~~~~~ 15 (65)
||+|++||||++...
T Consensus 1 M~~~s~LFGg~~~~~ 15 (91)
T PF10115_consen 1 MSFFSRLFGGGKKSE 15 (91)
T ss_pred CcHHHHhhCCCCCCC
Confidence 999999999865433
No 6
>COG5453 Uncharacterized conserved protein [Function unknown]
Probab=94.66 E-value=0.01 Score=38.18 Aligned_cols=12 Identities=50% Similarity=0.980 Sum_probs=10.7
Q ss_pred CchhhhhhcCCC
Q psy13000 1 MSFFKNIFGKTE 12 (65)
Q Consensus 1 Ms~~~~~FG~~~ 12 (65)
||+|+++||+++
T Consensus 1 msffsrlFG~g~ 12 (96)
T COG5453 1 MSFFSRLFGGGS 12 (96)
T ss_pred CcHHHHhhCCCC
Confidence 899999999754
No 7
>KOG2910|consensus
Probab=92.84 E-value=0.63 Score=33.53 Aligned_cols=57 Identities=28% Similarity=0.293 Sum_probs=45.9
Q ss_pred hhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc-hhhhh
Q psy13000 5 KNIFGKTEEKGPTTGEAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNGTKN-KREFD 62 (65)
Q Consensus 5 ~~~FG~~~~~~~~~~~aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~~kN-Kr~Al 62 (65)
+.+||+ +..-.....||..|..+-+-|-+=+.-|++.|+.|...||+....+ |..|+
T Consensus 2 G~lfsK-~~~Itd~DrAIL~lK~QRdkl~qyqkR~e~~le~Er~~Ar~lird~rKdrAl 59 (209)
T KOG2910|consen 2 GNLFSK-KSRITDQDRAILSLKTQRDKLKQYQKRLEKQLEAERQLARDLIRDGRKDRAL 59 (209)
T ss_pred CccccC-CCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhChHHHHH
Confidence 567874 3334557789999999999999999999999999999999999444 44454
No 8
>KOG1655|consensus
Probab=89.97 E-value=1.8 Score=31.34 Aligned_cols=36 Identities=31% Similarity=0.497 Sum_probs=21.9
Q ss_pred hhhhcCCC--CCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 5 KNIFGKTE--EKGPTTGEAIQKLRETEDMLIKKQEFLE 40 (65)
Q Consensus 5 ~~~FG~~~--~~~~~~~~aI~kLret~emL~KKe~~Le 40 (65)
.|+||.++ .++|+-.+||..+...-+-+++|-.-|.
T Consensus 2 nRiFG~~k~k~p~psL~dai~~v~~r~dSve~KIskLD 39 (218)
T KOG1655|consen 2 NRIFGRGKPKEPPPSLQDAIDSVNKRSDSVEKKISKLD 39 (218)
T ss_pred cccccCCCCCCCChhHHHHHHHHHHhhhhHHHHHHHHH
Confidence 68999754 4567777777766544444444444443
No 9
>PRK09343 prefoldin subunit beta; Provisional
Probab=85.07 E-value=3.3 Score=26.65 Aligned_cols=43 Identities=16% Similarity=-0.021 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-ccchhhh
Q psy13000 19 GEAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNG-TKNKREF 61 (65)
Q Consensus 19 ~~aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~-~kNKr~A 61 (65)
.+-|.-+...+.-|+|++++|++++.+....-+... .-++++|
T Consensus 77 ~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~ll~~~~~~~~ 120 (121)
T PRK09343 77 KERKELLELRSRTLEKQEKKLREKLKELQAKINEMLSKYYPQGG 120 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCC
Confidence 344556667788889999999999988777777766 4455543
No 10
>PRK13989 cell division topological specificity factor MinE; Provisional
Probab=84.08 E-value=0.47 Score=29.37 Aligned_cols=11 Identities=27% Similarity=0.582 Sum_probs=9.4
Q ss_pred CchhhhhhcCC
Q psy13000 1 MSFFKNIFGKT 11 (65)
Q Consensus 1 Ms~~~~~FG~~ 11 (65)
||+|.+|||++
T Consensus 1 M~l~~~f~~~k 11 (84)
T PRK13989 1 MSILSFLLGEK 11 (84)
T ss_pred CchHHHhhcCC
Confidence 89999999953
No 11
>KOG2911|consensus
Probab=80.32 E-value=5.4 Score=31.61 Aligned_cols=46 Identities=22% Similarity=0.229 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchh-hhhh
Q psy13000 18 TGEAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNGTKNKR-EFDH 63 (65)
Q Consensus 18 ~~~aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~~kNKr-~Al~ 63 (65)
..-+|..|+.+...|.++-++|++.|+.--..+|....++++ .|+.
T Consensus 231 ~D~~V~~L~~~~~~L~kqie~L~qeie~~~~~~r~~~k~g~K~iA~~ 277 (439)
T KOG2911|consen 231 IDGSVADLIQARAKLAKQIEFLEQEIEKSKEKLRQALKEGKKQIAIT 277 (439)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence 345788999999999999999999999999999999976665 4664
No 12
>PRK13991 cell division topological specificity factor MinE; Provisional
Probab=80.05 E-value=2.1 Score=26.76 Aligned_cols=50 Identities=20% Similarity=0.390 Sum_probs=25.4
Q ss_pred CchhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHhc
Q psy13000 1 MSFFKNIFGKTEEKGPTTGEAIQKLRETEDMLIKK----QEFLEKKIGEEINIARTNG 54 (65)
Q Consensus 1 Ms~~~~~FG~~~~~~~~~~~aI~kLret~emL~KK----e~~LekkI~~E~~~AKk~~ 54 (65)
||+|.+|||++ .+.|..-|=.+|+ +-+-..| -++|+.==.+=++-..+|+
T Consensus 1 M~~l~~~f~~k--~~~Sa~~AKeRLq--liLahdR~~~~p~~l~~lk~eil~VIsKYv 54 (87)
T PRK13991 1 MSFLDGLFGRK--RDSSSELAKQRLL--TVLVHDRVKLTPEMMEQMKADLAEVIKRYV 54 (87)
T ss_pred CChHHHhhcCC--CCCcHHHHHHHHH--HHHHHHcCCCCHHHHHHHHHHHHHHHHHHh
Confidence 89999999953 2334444444443 3333344 2555532223334444554
No 13
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=76.69 E-value=9.9 Score=21.39 Aligned_cols=26 Identities=31% Similarity=0.429 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 18 TGEAIQKLRETEDMLIKKQEFLEKKI 43 (65)
Q Consensus 18 ~~~aI~kLret~emL~KKe~~LekkI 43 (65)
+.++|+.|-..++-+.+|=+.||.++
T Consensus 21 v~~~lq~Lt~kL~~vs~RLe~LEn~~ 46 (47)
T PF10393_consen 21 VTSALQSLTQKLDAVSKRLEALENRL 46 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 56789999999999999999999886
No 14
>COG0851 MinE Septum formation topological specificity factor [Cell division and chromosome partitioning]
Probab=73.76 E-value=1.9 Score=27.34 Aligned_cols=18 Identities=28% Similarity=0.545 Sum_probs=12.5
Q ss_pred CchhhhhhcCCCCCCCCH
Q psy13000 1 MSFFKNIFGKTEEKGPTT 18 (65)
Q Consensus 1 Ms~~~~~FG~~~~~~~~~ 18 (65)
||+|..|||.++.+++++
T Consensus 1 Msl~dff~~r~~~Sa~~A 18 (88)
T COG0851 1 MSLFDFFFSRKKNSAETA 18 (88)
T ss_pred CcHHHHHHhcCCCcHHHH
Confidence 899999999654344433
No 15
>PF09803 DUF2346: Uncharacterized conserved protein (DUF2346); InterPro: IPR018625 Members of this family of proteins have no known function.
Probab=73.30 E-value=13 Score=22.75 Aligned_cols=32 Identities=22% Similarity=0.383 Sum_probs=25.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 15 GPTTGEAIQKLRETEDMLIKKQEFLEKKIGEEIN 48 (65)
Q Consensus 15 ~~~~~~aI~kLret~emL~KKe~~LekkI~~E~~ 48 (65)
.+...+.+.++++ ++..+|++-|..+++++..
T Consensus 47 ~~~~~~ele~~~~--~~~~k~~~rl~~~~e~~~~ 78 (80)
T PF09803_consen 47 NEEIREELEEFKE--ELRKKREERLLREMEEEER 78 (80)
T ss_pred CcccHHHHHHHHH--HHHHHHHHHHHHHHHHHHh
Confidence 4556788888888 5699999999999887654
No 16
>KOG3501|consensus
Probab=73.07 E-value=11 Score=25.03 Aligned_cols=29 Identities=31% Similarity=0.381 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 24 KLRETEDMLIKKQEFLEKKIGEEINIART 52 (65)
Q Consensus 24 kLret~emL~KKe~~LekkI~~E~~~AKk 52 (65)
.+++.++-|+|+.+|||+.+.+-...-|+
T Consensus 78 ~see~IeaLqkkK~YlEk~v~eaE~nLre 106 (114)
T KOG3501|consen 78 SSEEKIEALQKKKTYLEKTVSEAEQNLRE 106 (114)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 68899999999999999998765444443
No 17
>TIGR01215 minE cell division topological specificity factor MinE. This protein is involved in the process of cell division. This protein prevents the proteins MinC and MinD to inhibit cell division at internal sites, but allows inhibiton at polar sites. This allows for correct cell division at the proper sites.
Probab=71.45 E-value=4.9 Score=24.53 Aligned_cols=23 Identities=17% Similarity=0.289 Sum_probs=15.6
Q ss_pred CchhhhhhcCCCCCCCCHHHHHHHHH
Q psy13000 1 MSFFKNIFGKTEEKGPTTGEAIQKLR 26 (65)
Q Consensus 1 Ms~~~~~FG~~~~~~~~~~~aI~kLr 26 (65)
||+|..|||+++ .|...|=.+|.
T Consensus 1 M~l~~~f~~~k~---~Sa~~AKeRLq 23 (81)
T TIGR01215 1 MSLLEFFKSRKK---NSAEVAKDRLK 23 (81)
T ss_pred CchHHHhhcCCC---CcHHHHHHHHH
Confidence 899998888532 45555666665
No 18
>PRK10698 phage shock protein PspA; Provisional
Probab=67.08 E-value=22 Score=24.99 Aligned_cols=21 Identities=19% Similarity=0.241 Sum_probs=12.6
Q ss_pred Cchhhhhhc---CC----CCCCCCHHHH
Q psy13000 1 MSFFKNIFG---KT----EEKGPTTGEA 21 (65)
Q Consensus 1 Ms~~~~~FG---~~----~~~~~~~~~a 21 (65)
||+|++++- +. -++..+|...
T Consensus 1 M~if~Rl~~ii~a~in~~ldkaEDP~k~ 28 (222)
T PRK10698 1 MGIFSRFADIVNANINALLEKAEDPQKL 28 (222)
T ss_pred CCHHHHHHHHHHhHHHHHHHhhcCHHHH
Confidence 888887665 21 1456667643
No 19
>PHA01750 hypothetical protein
Probab=64.98 E-value=20 Score=22.06 Aligned_cols=26 Identities=23% Similarity=0.360 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 20 EAIQKLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 20 ~aI~kLret~emL~KKe~~LekkI~~ 45 (65)
.-+..||-.++-+.+|++.|+.||.+
T Consensus 42 ~ELdNL~~ei~~~kikqDnl~~qv~e 67 (75)
T PHA01750 42 SELDNLKTEIEELKIKQDELSRQVEE 67 (75)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 34458999999999999998888865
No 20
>TIGR02977 phageshock_pspA phage shock protein A. Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.
Probab=63.58 E-value=27 Score=24.18 Aligned_cols=22 Identities=18% Similarity=0.296 Sum_probs=12.6
Q ss_pred Cchhhhhhc---CC----CCCCCCHHHHH
Q psy13000 1 MSFFKNIFG---KT----EEKGPTTGEAI 22 (65)
Q Consensus 1 Ms~~~~~FG---~~----~~~~~~~~~aI 22 (65)
||+|.+++- +. -++..+|...|
T Consensus 1 M~if~Rl~~iv~a~~n~~~dk~EDP~~~l 29 (219)
T TIGR02977 1 MGIFSRFADIVNSNLNALLDKAEDPEKMI 29 (219)
T ss_pred CcHHHHHHHHHHHHHHHHHHhccCHHHHH
Confidence 888887654 21 14556666433
No 21
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole 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. 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.
Probab=63.55 E-value=29 Score=20.62 Aligned_cols=31 Identities=32% Similarity=0.285 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 19 GEAIQKLRETEDMLIKKQEFLEKKIGEEINI 49 (65)
Q Consensus 19 ~~aI~kLret~emL~KKe~~LekkI~~E~~~ 49 (65)
..+|-+||.++..+++--.-|..+++.....
T Consensus 32 ~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~ 62 (74)
T PF12329_consen 32 NNTIKKLRAKIKELEKQIKELKKKLEELEKE 62 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567788888888888888887777764443
No 22
>PF02346 Vac_Fusion: Chordopoxvirus fusion protein; InterPro: IPR003436 This is a family of viral fusion proteins from the Chordopoxvirinae. A 14kDa Vaccinia virus protein has been demonstrated to function as a viral fusion protein mediating cell fusion at endosmomal (low) pH []. The protein, found in the envelope fraction of the virions, is required for fusing the outermost of the two golgi-derived membranes enveloping the virus with the plasma membrane, and its subsequent release extracellularly. The N-terminal proximal region is essential for its fusion ability.; GO: 0019064 viral envelope fusion with host membrane, 0019031 viral envelope
Probab=62.88 E-value=12 Score=21.80 Aligned_cols=30 Identities=33% Similarity=0.379 Sum_probs=24.4
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 17 TTGEAIQKLRETEDMLIKKQEFLEKKIGEE 46 (65)
Q Consensus 17 ~~~~aI~kLret~emL~KKe~~LekkI~~E 46 (65)
...++|.+|.-|+|+|.+=-=-|.+|||-|
T Consensus 26 ~~~~~i~RLE~H~ETlRk~mv~L~kKiDvQ 55 (57)
T PF02346_consen 26 ENSEAIKRLEHHIETLRKYMVILAKKIDVQ 55 (57)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 356789999999999988888888888754
No 23
>PRK00296 minE cell division topological specificity factor MinE; Reviewed
Probab=60.61 E-value=3.2 Score=25.68 Aligned_cols=24 Identities=21% Similarity=0.242 Sum_probs=14.9
Q ss_pred CchhhhhhcCCCCCCCCHHHHHHHHHH
Q psy13000 1 MSFFKNIFGKTEEKGPTTGEAIQKLRE 27 (65)
Q Consensus 1 Ms~~~~~FG~~~~~~~~~~~aI~kLre 27 (65)
||+|..|||++ +.|..-|=.+|.-
T Consensus 1 M~l~~~f~~kk---~~Sa~~AKeRLq~ 24 (86)
T PRK00296 1 MSLLDFFRSRK---KSTANVAKERLQI 24 (86)
T ss_pred CchHHhhccCC---CCcHHHHHHHHHH
Confidence 88988777742 3455555555544
No 24
>COG5570 Uncharacterized small protein [Function unknown]
Probab=59.70 E-value=14 Score=21.72 Aligned_cols=23 Identities=30% Similarity=0.343 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 25 LRETEDMLIKKQEFLEKKIGEEI 47 (65)
Q Consensus 25 Lret~emL~KKe~~LekkI~~E~ 47 (65)
+-+++.-|+||-..||..|++..
T Consensus 3 ieshl~eL~kkHg~le~ei~ea~ 25 (57)
T COG5570 3 IESHLAELEKKHGNLEREIQEAM 25 (57)
T ss_pred HHHHHHHHHHhhchHHHHHHHHh
Confidence 45789999999999999998865
No 25
>PF08569 Mo25: Mo25-like; InterPro: IPR013878 Mo25-like proteins are involved in both polarised growth and cytokinesis. In fission yeast Mo25 is localised alternately to the spindle pole body and to the site of cell division in a cell cycle dependent manner [, ]. ; PDB: 2WTK_A 1UPK_A 3GNI_A 1UPL_A.
Probab=57.65 E-value=47 Score=24.92 Aligned_cols=45 Identities=29% Similarity=0.335 Sum_probs=26.1
Q ss_pred hhcCCCCCCCCHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHhc
Q psy13000 7 IFGKTEEKGPTTGEAIQKLRETEDML----IKKQEFLEKKIGEEINIARTNG 54 (65)
Q Consensus 7 ~FG~~~~~~~~~~~aI~kLret~emL----~KKe~~LekkI~~E~~~AKk~~ 54 (65)
|||. ++-+|.|.+..||+.+.-| .++.+.-...|...+...|.-.
T Consensus 4 lF~k---~~KtP~ElVr~l~e~L~~L~~~~~~~~~k~~eeisK~L~~mK~IL 52 (335)
T PF08569_consen 4 LFKK---KPKTPAELVRSLREALEKLDSKSDKKREKAQEEISKYLQQMKEIL 52 (335)
T ss_dssp -----------HHHHHHHHHHHHHHHHSS-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcCC---CCCCHHHHHHHHHHHHHHhccccCcchhhHHHHHHHHHHHHHHHh
Confidence 5664 5678999999999999999 3555555555555555555443
No 26
>PF10679 DUF2491: Protein of unknown function (DUF2491); InterPro: IPR019621 This entry represents a family of bacterial uncharacterised proteins.
Probab=57.37 E-value=4.8 Score=28.78 Aligned_cols=8 Identities=50% Similarity=1.211 Sum_probs=6.7
Q ss_pred hhhhhhcC
Q psy13000 3 FFKNIFGK 10 (65)
Q Consensus 3 ~~~~~FG~ 10 (65)
||++|||+
T Consensus 1 MF~klfgk 8 (212)
T PF10679_consen 1 MFSKLFGK 8 (212)
T ss_pred ChhHhhCC
Confidence 49999994
No 27
>PF04521 Viral_P18: ssRNA positive strand viral 18kD cysteine rich protein; InterPro: IPR007609 This family represents the 18kDa cysteine-rich protein from ssRNA positive strand viruses.
Probab=57.14 E-value=33 Score=22.86 Aligned_cols=30 Identities=20% Similarity=0.238 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 22 IQKLRETEDMLIKKQEFLEKKIGEEINIAR 51 (65)
Q Consensus 22 I~kLret~emL~KKe~~LekkI~~E~~~AK 51 (65)
|..|...++-|++|++.|-.+|..-.+.++
T Consensus 74 l~~~~~~L~~Le~r~e~Lk~~~~~~~~~~~ 103 (120)
T PF04521_consen 74 LSDLNLELEKLERREEQLKTQIQVLTAAAK 103 (120)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 566777899999999999999988544443
No 28
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=56.76 E-value=45 Score=20.67 Aligned_cols=35 Identities=17% Similarity=0.149 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 18 TGEAIQKLRETEDMLIKKQEFLEKKIGEEINIART 52 (65)
Q Consensus 18 ~~~aI~kLret~emL~KKe~~LekkI~~E~~~AKk 52 (65)
-.+-|..+...++-|+++.++|++++.+-....+.
T Consensus 72 l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~ 106 (110)
T TIGR02338 72 LKEKKETLELRVKTLQRQEERLREQLKELQEKIQE 106 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445556666667777777777777765554443
No 29
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=56.53 E-value=34 Score=22.60 Aligned_cols=29 Identities=28% Similarity=0.370 Sum_probs=23.1
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 17 TTGEAIQKLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 17 ~~~~aI~kLret~emL~KKe~~LekkI~~ 45 (65)
+-.+++..|.+.+|.|+.|-.-|+++.+.
T Consensus 67 ~k~~~~~eL~er~E~Le~ri~tLekQe~~ 95 (119)
T COG1382 67 SKEEAVDELEERKETLELRIKTLEKQEEK 95 (119)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55678899999999988888888776654
No 30
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=53.39 E-value=42 Score=20.36 Aligned_cols=29 Identities=34% Similarity=0.379 Sum_probs=22.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 17 TTGEAIQKLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 17 ~~~~aI~kLret~emL~KKe~~LekkI~~ 45 (65)
++.+|+.-|...++.|++..+.|+.++..
T Consensus 74 s~~eA~~~l~~r~~~l~~~~~~l~~~~~~ 102 (120)
T PF02996_consen 74 SLEEAIEFLKKRIKELEEQLEKLEKELAE 102 (120)
T ss_dssp EHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57788888888888888887777777665
No 31
>PF13758 Prefoldin_3: Prefoldin subunit
Probab=52.58 E-value=60 Score=20.86 Aligned_cols=40 Identities=23% Similarity=0.309 Sum_probs=22.2
Q ss_pred hhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 7 IFGKTEEKGPTTGEAIQKLRETEDMLIKKQEFLEKKIGEE 46 (65)
Q Consensus 7 ~FG~~~~~~~~~~~aI~kLret~emL~KKe~~LekkI~~E 46 (65)
+||.+..-.-+|.++|.=|---++-..+=-+-|+++|+..
T Consensus 55 ilG~~~~i~Rt~~Qvv~~l~RRiDYV~~Ni~tleKql~~a 94 (99)
T PF13758_consen 55 ILGEGQGITRTREQVVDVLSRRIDYVQQNIETLEKQLEAA 94 (99)
T ss_pred HhCCCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5554444446677776655555555555555555555544
No 32
>PF03836 RasGAP_C: RasGAP C-terminus; InterPro: IPR000593 Ras GTPase-activating protein (rasGAP) is a major contributor to the down-regulation of ras by facilitating GTP hydrolysis of activated ras. In addition, GAP participates in the down-stream effector system of the ras signalling pathway. Abnormal signal transduction involving activated ras genes plays a major role in the development of a variety of tumours. Depending on the precise genetic alteration, its location within the gene and the effects it exerts on protein function, rasGAP can theoretically function as either an oncogene or as a tumour suppressor gene [].; GO: 0005099 Ras GTPase activator activity, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 3ISU_A 3IEZ_A 4EZA_B 1X0H_A.
Probab=52.37 E-value=4.7 Score=26.33 Aligned_cols=27 Identities=33% Similarity=0.551 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 19 GEAIQKLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 19 ~~aI~kLret~emL~KKe~~LekkI~~ 45 (65)
..=+..|++|+.-|..+..||+.+++.
T Consensus 50 ~~El~~l~~tl~~L~~k~~~l~~ql~~ 76 (142)
T PF03836_consen 50 KQELEKLRQTLKNLNEKNKFLEEQLDS 76 (142)
T ss_dssp ---------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344778999999999999999999986
No 33
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=52.24 E-value=35 Score=18.01 Aligned_cols=23 Identities=30% Similarity=0.475 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 23 QKLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 23 ~kLret~emL~KKe~~LekkI~~ 45 (65)
++|-...|.|.+|.+.|..+.++
T Consensus 4 qkL~sekeqLrrr~eqLK~kLeq 26 (32)
T PF02344_consen 4 QKLISEKEQLRRRREQLKHKLEQ 26 (32)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777889999999999988875
No 34
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=49.06 E-value=28 Score=20.84 Aligned_cols=23 Identities=22% Similarity=0.255 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 19 GEAIQKLRETEDMLIKKQEFLEK 41 (65)
Q Consensus 19 ~~aI~kLret~emL~KKe~~Lek 41 (65)
...+.++|+.++-|++|=+.||.
T Consensus 56 ~~~L~~~r~kl~~LEarl~~LE~ 78 (79)
T PF04380_consen 56 KAVLARTREKLEALEARLAALEA 78 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 34556777777777777777764
No 35
>PF14971 DUF4510: Domain of unknown function (DUF4510)
Probab=47.91 E-value=74 Score=22.26 Aligned_cols=33 Identities=24% Similarity=0.256 Sum_probs=30.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 17 TTGEAIQKLRETEDMLIKKQEFLEKKIGEEINI 49 (65)
Q Consensus 17 ~~~~aI~kLret~emL~KKe~~LekkI~~E~~~ 49 (65)
-+.+.|..||+.+.-|+.==.-|+.++.+|++.
T Consensus 116 ~aaevi~~Lrs~EA~Le~~L~rLQ~qcrqELar 148 (163)
T PF14971_consen 116 RAAEVIRALRSQEACLEAVLRRLQGQCRQELAR 148 (163)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 368999999999999999999999999999874
No 36
>PF15361 RIC3: Resistance to inhibitors of cholinesterase homologue 3
Probab=47.19 E-value=16 Score=24.55 Aligned_cols=12 Identities=33% Similarity=0.498 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHH
Q psy13000 23 QKLRETEDMLIK 34 (65)
Q Consensus 23 ~kLret~emL~K 34 (65)
++|+|||++++|
T Consensus 138 ~rL~qTE~~m~k 149 (152)
T PF15361_consen 138 ERLAQTERAMEK 149 (152)
T ss_pred HHHHHHHHHHHH
Confidence 377888888775
No 37
>PF03234 CDC37_N: Cdc37 N terminal kinase binding; InterPro: IPR013855 In Saccharomyces cerevisiae (Baker's yeast), cell division control protein Cdc37 is required for the productive formation of Cdc28-cyclin complexes. Cdc37 may be a kinase targeting subunit of Hsp90 [].
Probab=46.09 E-value=82 Score=21.85 Aligned_cols=39 Identities=26% Similarity=0.255 Sum_probs=34.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q psy13000 17 TTGEAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNGT 55 (65)
Q Consensus 17 ~~~~aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~~ 55 (65)
+....+..|..|..=|.+.+.-+..++++.....+++.+
T Consensus 128 ~~~~~~~~l~~H~~kl~~~~ke~~~kLeeLekEe~kkit 166 (177)
T PF03234_consen 128 SGKAELEELQEHRAKLEKEQKELKKKLEELEKEEKKKIT 166 (177)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 377788899999999999999999999999988887764
No 38
>KOG4460|consensus
Probab=45.42 E-value=45 Score=27.94 Aligned_cols=31 Identities=19% Similarity=0.150 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 18 TGEAIQKLRETEDMLIKKQEFLEKKIGEEIN 48 (65)
Q Consensus 18 ~~~aI~kLret~emL~KKe~~LekkI~~E~~ 48 (65)
--+-|..+||..+.+++++++|+++||+-.+
T Consensus 600 QlQ~l~~~~eer~~i~e~a~~La~R~eea~e 630 (741)
T KOG4460|consen 600 QLQDLSYCREERKSLREMAERLADRYEEAKE 630 (741)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455788999999999999999999987443
No 39
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=45.35 E-value=69 Score=19.47 Aligned_cols=30 Identities=33% Similarity=0.380 Sum_probs=22.7
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 16 PTTGEAIQKLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 16 ~~~~~aI~kLret~emL~KKe~~LekkI~~ 45 (65)
-+..+|+.-|...++.|++..+-|++.|+.
T Consensus 83 ~~~~eA~~~l~~r~~~l~~~~~~l~~~~~~ 112 (129)
T cd00890 83 KSLEEAIEFLKKRLETLEKQIEKLEKQLEK 112 (129)
T ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457778888888888888887777777665
No 40
>KOG2577|consensus
Probab=43.76 E-value=96 Score=24.05 Aligned_cols=54 Identities=17% Similarity=0.133 Sum_probs=37.2
Q ss_pred hhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--ccchhh
Q psy13000 7 IFGKTEEKGPTTGEAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNG--TKNKRE 60 (65)
Q Consensus 7 ~FG~~~~~~~~~~~aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~--~kNKr~ 60 (65)
|-|+.-..-....+=+..|+..++.|...|..|+..|....+.-+-.. ..|.+-
T Consensus 131 W~G~~~~~~~~~~e~~~~l~~e~~~L~~~E~~LD~~i~~~q~~L~~lted~~n~~l 186 (354)
T KOG2577|consen 131 WIGGDFNSTGGVPERLNGLEAEVEDLSQEEDDLDQLIRDCQQNLRLLTEDVENRRL 186 (354)
T ss_pred eecCCCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhcccc
Confidence 555432222334566778999999999999999999988777666655 445543
No 41
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=42.97 E-value=75 Score=20.26 Aligned_cols=9 Identities=33% Similarity=0.578 Sum_probs=3.7
Q ss_pred HHHHHHHHH
Q psy13000 22 IQKLRETED 30 (65)
Q Consensus 22 I~kLret~e 30 (65)
|.+||++++
T Consensus 74 L~~Lk~kl~ 82 (100)
T PF04568_consen 74 LKKLKEKLK 82 (100)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 344444433
No 42
>PRK05892 nucleoside diphosphate kinase regulator; Provisional
Probab=41.56 E-value=89 Score=20.92 Aligned_cols=37 Identities=16% Similarity=0.122 Sum_probs=29.5
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy13000 14 KGPTTGEAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNG 54 (65)
Q Consensus 14 ~~~~~~~aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~ 54 (65)
..+-+++...+|++.++-|... --.|.+++..|+.++
T Consensus 5 ~~~lT~eg~~~L~~EL~~L~~~----r~~i~~~i~~Ar~~G 41 (158)
T PRK05892 5 SKGLAPAARDHLEAELARLRAR----RDRLAVEVNDRGMIG 41 (158)
T ss_pred CCccCHHHHHHHHHHHHHHHHH----hHHHHHHHHHHHhCC
Confidence 3567899999999999999642 566777888888877
No 43
>PF08153 NGP1NT: NGP1NT (NUC091) domain; InterPro: IPR012971 This N-terminal domain is found in a subfamily of hypothetical nucleolar GTP-binding proteins similar to human NGP1 [].
Probab=39.72 E-value=21 Score=23.91 Aligned_cols=23 Identities=30% Similarity=0.505 Sum_probs=17.7
Q ss_pred hhhhcCCCCCCCCHHHHHHHHHHHHH
Q psy13000 5 KNIFGKTEEKGPTTGEAIQKLRETED 30 (65)
Q Consensus 5 ~~~FG~~~~~~~~~~~aI~kLret~e 30 (65)
.+|||. ...-.+++++.+|+.+.
T Consensus 35 RrWFgN---TRvI~Q~~L~~FReem~ 57 (130)
T PF08153_consen 35 RRWFGN---TRVISQEALEKFREEMG 57 (130)
T ss_pred hhhhcC---ceEECHHHHHHHHHHHH
Confidence 479994 55668999999998763
No 44
>PHA00442 host recBCD nuclease inhibitor
Probab=39.02 E-value=58 Score=19.27 Aligned_cols=25 Identities=32% Similarity=0.391 Sum_probs=22.4
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 16 PTTGEAIQKLRETEDMLIKKQEFLE 40 (65)
Q Consensus 16 ~~~~~aI~kLret~emL~KKe~~Le 40 (65)
.-|.+|--.+..-|+-|+|++++|+
T Consensus 9 titRd~wnd~q~yidsLek~~~~L~ 33 (59)
T PHA00442 9 TITRDAWNDMQGYIDSLEKDNEFLK 33 (59)
T ss_pred eecHHHHHHHHHHHHHHHHhhHHHH
Confidence 4588899999999999999999998
No 45
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=37.72 E-value=87 Score=18.40 Aligned_cols=32 Identities=19% Similarity=0.174 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 21 AIQKLRETEDMLIKKQEFLEKKIGEEINIART 52 (65)
Q Consensus 21 aI~kLret~emL~KKe~~LekkI~~E~~~AKk 52 (65)
+|..+.+++.-|...|..|...|+.+-..=+.
T Consensus 15 ~l~~~~~~l~el~~sQ~~L~~~i~~~~~~L~~ 46 (92)
T PF14712_consen 15 DLDRLDQQLQELRQSQEELLQQIDRLNEKLKE 46 (92)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 68899999999999999999999987655443
No 46
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=37.17 E-value=1.2e+02 Score=24.13 Aligned_cols=34 Identities=24% Similarity=0.291 Sum_probs=29.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 15 GPTTGEAIQKLRETEDMLIKKQEFLEKKIGEEIN 48 (65)
Q Consensus 15 ~~~~~~aI~kLret~emL~KKe~~LekkI~~E~~ 48 (65)
..+|.++|.+|++.++-+++..+.++.++.+...
T Consensus 210 ~~~p~~~l~~l~~~l~~l~~~~~~~~~~l~~~~~ 243 (646)
T PRK05771 210 EGTPSELIREIKEELEEIEKERESLLEELKELAK 243 (646)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5679999999999999999999998888887444
No 47
>PF12537 DUF3735: Protein of unknown function (DUF3735); InterPro: IPR022535 This conserved domain is found in a subunit of a voltage dependent anion channel required for acidification and functions of the Golgi apparatus; it may function in counter-ion conductance. It belongs to the Golgi pH regulator (1.A.38 from TC) family
Probab=36.70 E-value=54 Score=19.16 Aligned_cols=24 Identities=33% Similarity=0.483 Sum_probs=18.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 16 PTTGEAIQKLRETEDMLIKKQEFL 39 (65)
Q Consensus 16 ~~~~~aI~kLret~emL~KKe~~L 39 (65)
.+-..++.+|+.+.+||..|..-|
T Consensus 48 ~~i~~~~~~l~~t~~~l~~Kk~~l 71 (72)
T PF12537_consen 48 SDINNAERRLWHTRDMLVEKKKRL 71 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344556778999999998887655
No 48
>PF01496 V_ATPase_I: V-type ATPase 116kDa subunit family ; InterPro: IPR002490 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents the 116kDa subunit (or subunit a) and subunit I found in the V0 or A0 complex of V- or A-ATPases, respectively. The 116kDa subunit is a transmembrane glycoprotein required for the assembly and proton transport activity of the ATPase complex. Several isoforms of the 116kDa subunit exist, providing a potential role in the differential targeting and regulation of the V-ATPase for specific organelles []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015991 ATP hydrolysis coupled proton transport, 0033177 proton-transporting two-sector ATPase complex, proton-transporting domain; PDB: 2RPW_X 2NVJ_A 2JTW_A 3RRK_A.
Probab=36.67 E-value=1.2e+02 Score=24.62 Aligned_cols=35 Identities=31% Similarity=0.321 Sum_probs=28.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 15 GPTTGEAIQKLRETEDMLIKKQEFLEKKIGEEINI 49 (65)
Q Consensus 15 ~~~~~~aI~kLret~emL~KKe~~LekkI~~E~~~ 49 (65)
..+|.+++..|++.++-|++..+.++..+.+.+..
T Consensus 224 ~~~p~e~~~~l~~~i~~l~~~~~~~~~~l~~~~~~ 258 (759)
T PF01496_consen 224 EGTPEEAIKELEEEIEELEKELEELEEELKKLLEK 258 (759)
T ss_dssp GGG-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45799999999999999999999888888865544
No 49
>PRK13987 cell division topological specificity factor MinE; Provisional
Probab=36.55 E-value=39 Score=21.18 Aligned_cols=8 Identities=38% Similarity=0.505 Sum_probs=5.6
Q ss_pred Cchhhhhh
Q psy13000 1 MSFFKNIF 8 (65)
Q Consensus 1 Ms~~~~~F 8 (65)
||+|+.||
T Consensus 1 M~~~~~f~ 8 (91)
T PRK13987 1 MDLFKFFS 8 (91)
T ss_pred CchhHhhc
Confidence 88877554
No 50
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=36.31 E-value=1.1e+02 Score=19.31 Aligned_cols=29 Identities=31% Similarity=0.337 Sum_probs=20.3
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 17 TTGEAIQKLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 17 ~~~~aI~kLret~emL~KKe~~LekkI~~ 45 (65)
+..+||.-|...++.|++.-+-|+..|..
T Consensus 91 ~~~eA~~~l~~~~~~l~~~~~~l~~~l~~ 119 (140)
T PRK03947 91 DLDEAIEILDKRKEELEKALEKLEEALQK 119 (140)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56777777777777777777666666554
No 51
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=35.98 E-value=99 Score=18.53 Aligned_cols=32 Identities=16% Similarity=0.184 Sum_probs=26.9
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 16 PTTGEAIQKLRETEDMLIKKQEFLEKKIGEEI 47 (65)
Q Consensus 16 ~~~~~aI~kLret~emL~KKe~~LekkI~~E~ 47 (65)
+...+.+..|++.++-|+.+...++.+++.-.
T Consensus 66 ~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~ 97 (104)
T PF13600_consen 66 ESDSPELKELEEELEALEDELAALQDEIQALE 97 (104)
T ss_pred ccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55677999999999999999999888877543
No 52
>PF10130 PIN_2: PIN domain; InterPro: IPR019298 This entry represents a set of bacterial and archaeal proteins that are predicted to be RNases (from similarities to 5'-exonucleases).
Probab=35.58 E-value=82 Score=20.55 Aligned_cols=38 Identities=18% Similarity=0.250 Sum_probs=31.5
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy13000 17 TTGEAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNG 54 (65)
Q Consensus 17 ~~~~aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~ 54 (65)
+|.-++.+++++++.|.+|...-+....+-+.....++
T Consensus 31 ~p~~~~~Ei~kh~~~I~~k~~l~~~~~~~~l~~l~~~I 68 (133)
T PF10130_consen 31 APDYALEEIEKHLPKIAKKSKLSEEELEEVLNILFSRI 68 (133)
T ss_pred ccHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhe
Confidence 59999999999999999998887777777776665554
No 53
>PF06476 DUF1090: Protein of unknown function (DUF1090); InterPro: IPR009468 This family consists of several bacterial proteins of unknown function and is known as YqjC in Escherichia coli.
Probab=34.88 E-value=38 Score=21.83 Aligned_cols=21 Identities=19% Similarity=0.289 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHhcccchhhhh
Q psy13000 42 KIGEEINIARTNGTKNKREFD 62 (65)
Q Consensus 42 kI~~E~~~AKk~~~kNKr~Al 62 (65)
.|+.|++.|+.|+..++-+-|
T Consensus 28 ~Ie~qI~~Ak~~gN~~rv~GL 48 (115)
T PF06476_consen 28 AIEKQIEYAKAHGNQHRVAGL 48 (115)
T ss_pred HHHHHHHHHHHcCCHHHHHHH
Confidence 467788899999988776544
No 54
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=34.82 E-value=1.1e+02 Score=18.92 Aligned_cols=29 Identities=31% Similarity=0.351 Sum_probs=20.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 17 TTGEAIQKLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 17 ~~~~aI~kLret~emL~KKe~~LekkI~~ 45 (65)
+..+|+.-|...++.|++.-+-|++.|..
T Consensus 84 ~~~eA~~~l~~r~~~l~~~~~~l~~~l~~ 112 (129)
T cd00584 84 DLEEAIEFLDKKIEELTKQIEKLQKELAK 112 (129)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46678877777777777777777766654
No 55
>PF15477 SMAP: Small acidic protein family
Probab=34.65 E-value=59 Score=18.94 Aligned_cols=45 Identities=16% Similarity=0.263 Sum_probs=27.9
Q ss_pred hhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy13000 4 FKNIFGKTEEKGPTTGEAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNG 54 (65)
Q Consensus 4 ~~~~FG~~~~~~~~~~~aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~ 54 (65)
|.+|-|+++..++.+. .....+-.++++-|+..++.|-+.|+..-
T Consensus 17 FlRLMG~kk~~~~~~~------~~~~~~~~~~~~~l~~~Le~Qy~~a~~~k 61 (69)
T PF15477_consen 17 FLRLMGGKKAGASAAA------SPNMALSKEKQEKLQQDLEQQYEAAMSRK 61 (69)
T ss_pred HHHHhcCCCCCCCCCC------CccccccHHHHHHHHHHHHHHHHHHHHhh
Confidence 6778887543222211 12444556677788888888888887654
No 56
>KOG0946|consensus
Probab=34.21 E-value=46 Score=28.89 Aligned_cols=39 Identities=21% Similarity=0.430 Sum_probs=29.3
Q ss_pred CchhhhhhcCC--CCCCCCHHHHHHHHHHHHH---HHHHHHHHH
Q psy13000 1 MSFFKNIFGKT--EEKGPTTGEAIQKLRETED---MLIKKQEFL 39 (65)
Q Consensus 1 Ms~~~~~FG~~--~~~~~~~~~aI~kLret~e---mL~KKe~~L 39 (65)
|++|...|||. +++.++..++|.+|=+-.+ +++.|.+..
T Consensus 1 Mdi~~~~~~g~~q~~k~~s~aETI~kLcDRvessTL~eDRR~A~ 44 (970)
T KOG0946|consen 1 MDIFRGSYNGGQQPPKQQSAAETIEKLCDRVESSTLLEDRRDAV 44 (970)
T ss_pred CchhhhcccccCCCCccccHHhHHHHHHHHHhhccchhhHHHHH
Confidence 88999988764 4566899999999987665 566665543
No 57
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=34.08 E-value=1.2e+02 Score=18.94 Aligned_cols=31 Identities=19% Similarity=0.349 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 21 AIQKLRETEDMLIKKQEFLEKKIGEEINIAR 51 (65)
Q Consensus 21 aI~kLret~emL~KKe~~LekkI~~E~~~AK 51 (65)
.+..|...++-|+.|-.+|..++.+=++--|
T Consensus 34 ~LD~Lns~LD~LE~rnD~l~~~L~~LLesnr 64 (83)
T PF03670_consen 34 MLDQLNSCLDHLEQRNDHLHAQLQELLESNR 64 (83)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 3456777777888888888877776555443
No 58
>COG5211 SSU72 RNA polymerase II-interacting protein involved in transcription start site selection [Transcription]
Probab=33.58 E-value=1.5e+02 Score=21.20 Aligned_cols=37 Identities=27% Similarity=0.297 Sum_probs=26.4
Q ss_pred CCCCCHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 13 EKGPTTGEAIQKLR---ETEDMLIKKQEFLEKKIGEEINI 49 (65)
Q Consensus 13 ~~~~~~~~aI~kLr---et~emL~KKe~~LekkI~~E~~~ 49 (65)
+-+++|.+||..=. |-.++|.+.++-||--|..=+..
T Consensus 141 DIkD~~e~A~~G~kaILelvd~L~~~~e~lE~~~~sil~~ 180 (197)
T COG5211 141 DIKDTPEDAIAGAKAILELVDVLAKEEERLEYAVDSILRR 180 (197)
T ss_pred eccCChhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677888877433 34478999999999888765543
No 59
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=33.04 E-value=1.3e+02 Score=24.19 Aligned_cols=31 Identities=16% Similarity=0.127 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 21 AIQKLRETEDMLIKKQEFLEKKIGEEINIAR 51 (65)
Q Consensus 21 aI~kLret~emL~KKe~~LekkI~~E~~~AK 51 (65)
-|..||..++++.+..+.+|.+|++...+-+
T Consensus 84 qLaaLrqElq~~saq~~dle~KIkeLEaE~~ 114 (475)
T PRK13729 84 QYEEIRRELDVLNKQRGDDQRRIEKLGQDNA 114 (475)
T ss_pred HHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence 3556666777777777788887776544433
No 60
>PRK13988 cell division topological specificity factor MinE; Provisional
Probab=32.78 E-value=37 Score=21.59 Aligned_cols=10 Identities=20% Similarity=0.796 Sum_probs=7.1
Q ss_pred CchhhhhhcC
Q psy13000 1 MSFFKNIFGK 10 (65)
Q Consensus 1 Ms~~~~~FG~ 10 (65)
|.+|.+|||.
T Consensus 4 ~~~l~~lf~~ 13 (97)
T PRK13988 4 RDLLEKLFGR 13 (97)
T ss_pred HHHHHHHhcC
Confidence 3567889984
No 61
>PHA02571 a-gt.4 hypothetical protein; Provisional
Probab=32.77 E-value=94 Score=20.43 Aligned_cols=29 Identities=31% Similarity=0.245 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcccchhh
Q psy13000 29 EDMLIKKQEFLEKKIGEEINIARTNGTKNKRE 60 (65)
Q Consensus 29 ~emL~KKe~~LekkI~~E~~~AKk~~~kNKr~ 60 (65)
++++.+-|+.++...+ ..|.++..||+|.
T Consensus 17 ee~~~~~q~~~e~eA~---kkA~K~lkKN~rE 45 (109)
T PHA02571 17 EELLSELQARNEAEAE---KKAAKILKKNRRE 45 (109)
T ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHHhHHH
Confidence 6667666666665543 4688888888875
No 62
>KOG1760|consensus
Probab=32.33 E-value=1.2e+02 Score=20.59 Aligned_cols=27 Identities=41% Similarity=0.385 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 24 KLRETEDMLIKKQEFLEKKIGEEINIA 50 (65)
Q Consensus 24 kLret~emL~KKe~~LekkI~~E~~~A 50 (65)
++-.+.+||+...+-|++.|+.-...+
T Consensus 78 ~~~~~~~~LEe~ke~l~k~i~~les~~ 104 (131)
T KOG1760|consen 78 KLDKLQDQLEEKKETLEKEIEELESEL 104 (131)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455667777777777777776644433
No 63
>PF11819 DUF3338: Domain of unknown function (DUF3338); InterPro: IPR021774 This family of proteins are functionally uncharacterised. This family is found in eukaryotes. This presumed domain is about 130 amino acids in length.
Probab=31.94 E-value=1.4e+02 Score=20.16 Aligned_cols=32 Identities=16% Similarity=0.271 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 21 AIQKLRETEDMLIKKQEFLEKKIGEEINIART 52 (65)
Q Consensus 21 aI~kLret~emL~KKe~~LekkI~~E~~~AKk 52 (65)
.-....+.+..|.+|+..||.+...-++.=|+
T Consensus 26 ~~~~~~e~~~~Lk~rk~~Lee~L~~kl~ELk~ 57 (138)
T PF11819_consen 26 EEAAKKERLRALKKRKQALEERLAQKLEELKK 57 (138)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566889999999999999999887766554
No 64
>PF10205 KLRAQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019343 This entry represents a N-terminal 100 residues long domain, which contains a conserved KLRAQ motif. This domain is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain a C-terminal TTKRSYEDQ motif domain (IPR019348 from INTERPRO). The function of these proteins is not known.
Probab=31.40 E-value=1.5e+02 Score=19.16 Aligned_cols=26 Identities=27% Similarity=0.445 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 20 EAIQKLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 20 ~aI~kLret~emL~KKe~~LekkI~~ 45 (65)
.+|.++.+.++.|.=|-..|+++|+.
T Consensus 40 ~~LRk~eqE~dSL~FrN~QL~kRV~~ 65 (102)
T PF10205_consen 40 QALRKLEQENDSLTFRNQQLTKRVEV 65 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47889999999999999999999876
No 65
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=31.37 E-value=1.9e+02 Score=21.33 Aligned_cols=35 Identities=17% Similarity=0.057 Sum_probs=29.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 15 GPTTGEAIQKLRETEDMLIKKQEFLEKKIGEEINI 49 (65)
Q Consensus 15 ~~~~~~aI~kLret~emL~KKe~~LekkI~~E~~~ 49 (65)
...-.+|...|.++.++.+++=..|+.++++-.+.
T Consensus 62 ~~~l~~ak~eLqe~eek~e~~l~~Lq~ql~~l~ak 96 (258)
T PF15397_consen 62 HKQLQQAKAELQEWEEKEESKLSKLQQQLEQLDAK 96 (258)
T ss_pred hHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 34467899999999999999999999998875443
No 66
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=31.04 E-value=1.2e+02 Score=20.72 Aligned_cols=36 Identities=25% Similarity=0.311 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q psy13000 20 EAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNGT 55 (65)
Q Consensus 20 ~aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~~ 55 (65)
.||-=.--+++.|..|-.-|+.++++=+..|+.|-.
T Consensus 40 ~avSL~erQ~~~LR~~~~~L~~~l~~Li~~Ar~Ne~ 75 (225)
T PF04340_consen 40 GAVSLVERQLERLRERNRQLEEQLEELIENARENEA 75 (225)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355555568889999999999999999999999873
No 67
>cd04776 HTH_GnyR Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR. Putative helix-turn-helix (HTH) regulatory protein, GnyR, and other related proteins. GnyR belongs to the gnyRDBHAL cluster, which is involved in acyclic isoprenoid degradation in Pseudomonas aeruginosa. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=30.82 E-value=84 Score=19.74 Aligned_cols=22 Identities=9% Similarity=0.292 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy13000 22 IQKLRETEDMLIKKQEFLEKKI 43 (65)
Q Consensus 22 I~kLret~emL~KKe~~LekkI 43 (65)
+.-|.++++.|+.+.+.|+.-+
T Consensus 82 ~~~l~~~~~~l~~~~~~l~~~~ 103 (118)
T cd04776 82 LEKIEKRRAELEQQRRDIDAAL 103 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445554444444444433
No 68
>PF15235 GRIN_C: G protein-regulated inducer of neurite outgrowth C-terminus
Probab=30.55 E-value=39 Score=22.97 Aligned_cols=11 Identities=45% Similarity=0.691 Sum_probs=9.1
Q ss_pred HHHHHHHHHHH
Q psy13000 36 QEFLEKKIGEE 46 (65)
Q Consensus 36 e~~LekkI~~E 46 (65)
|.|||.||++.
T Consensus 73 QkHLE~qi~e~ 83 (137)
T PF15235_consen 73 QKHLERQIEEH 83 (137)
T ss_pred HHHHHHHHHHh
Confidence 56999999886
No 69
>PF08657 DASH_Spc34: DASH complex subunit Spc34 ; InterPro: IPR013966 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=30.50 E-value=1.5e+02 Score=21.55 Aligned_cols=37 Identities=24% Similarity=0.316 Sum_probs=31.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 15 GPTTGEAIQKLRETEDMLIKKQEFLEKKIGEEINIAR 51 (65)
Q Consensus 15 ~~~~~~aI~kLret~emL~KKe~~LekkI~~E~~~AK 51 (65)
-+...+-|..||.....|.--=++||.+|++|-+.=.
T Consensus 175 ~~ga~eki~~Lr~~y~~l~~~i~~lE~~VaeQ~~qL~ 211 (259)
T PF08657_consen 175 LPGAREKIAALRQRYNQLSNSIAYLEAEVAEQEAQLE 211 (259)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4578899999999999999999999999998765433
No 70
>PRK10963 hypothetical protein; Provisional
Probab=30.01 E-value=1.2e+02 Score=21.04 Aligned_cols=34 Identities=12% Similarity=0.028 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy13000 21 AIQKLRETEDMLIKKQEFLEKKIGEEINIARTNG 54 (65)
Q Consensus 21 aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~ 54 (65)
||-=.--+.++|..|-..||.++.+=+..|+.|-
T Consensus 38 aVSL~ErQ~~~LR~r~~~Le~~l~~Li~~A~~Ne 71 (223)
T PRK10963 38 TVSLVEWQMARQRNHIHVLEEEMTLLMEQAIANE 71 (223)
T ss_pred eecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4432334688888899999999999999999986
No 71
>KOG1566|consensus
Probab=29.90 E-value=1.1e+02 Score=23.80 Aligned_cols=39 Identities=21% Similarity=0.419 Sum_probs=29.3
Q ss_pred hhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 7 IFGKTEEKGPTTGEAIQKLRETEDMLIKKQEFLEKKIGEEIN 48 (65)
Q Consensus 7 ~FG~~~~~~~~~~~aI~kLret~emL~KKe~~LekkI~~E~~ 48 (65)
|||. ++.+|.|.+..+|+.+.-+++-...++.+-+.-.+
T Consensus 4 ~f~k---~~ktP~d~Vr~~rd~l~~~~~~~~l~~~~~~k~~e 42 (342)
T KOG1566|consen 4 LFKK---SPKTPADVVRRTRDKLKFLDKVRDLLDHKREKAVE 42 (342)
T ss_pred ccCC---CCCCHHHHHHHHHHHHhcccccchhHHHHHHHHHH
Confidence 4564 57789999999999999999987666655544333
No 72
>PF14703 DUF4463: Domain of unknown function (DUF4463)
Probab=29.70 E-value=40 Score=19.34 Aligned_cols=15 Identities=33% Similarity=0.282 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHH
Q psy13000 18 TGEAIQKLRETEDML 32 (65)
Q Consensus 18 ~~~aI~kLret~emL 32 (65)
-.|||.=.++.++-|
T Consensus 70 kVDaIdyy~~el~~L 84 (85)
T PF14703_consen 70 KVDAIDYYREELKEL 84 (85)
T ss_pred cchHHHHHHHHHHHh
Confidence 467999999988765
No 73
>PF09548 Spore_III_AB: Stage III sporulation protein AB (spore_III_AB); InterPro: IPR014198 This entry represents the stage III sporulation protein AB, which is encoded in a spore formation operon: spoIIIAABCDEFGH that is under sigma G regulation []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.
Probab=29.45 E-value=1.1e+02 Score=20.36 Aligned_cols=43 Identities=19% Similarity=0.271 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHhcccchhh
Q psy13000 18 TGEAIQKLRETE-----DMLIKKQEFLEKKIGEEINIARTNGTKNKRE 60 (65)
Q Consensus 18 ~~~aI~kLret~-----emL~KKe~~LekkI~~E~~~AKk~~~kNKr~ 60 (65)
..+.+..|-.++ ++-.|-=++...+++.+++.|++...+|.|.
T Consensus 106 d~e~L~~lg~~LG~~D~~~Q~k~i~l~~~~L~~~~~~a~~~~~~~~Kl 153 (170)
T PF09548_consen 106 DKEILLELGKSLGYSDREMQEKHIELYLEQLEQQLEEAREEAKKKGKL 153 (170)
T ss_pred HHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccH
Confidence 444455554443 6667777888999999999999999888875
No 74
>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=29.12 E-value=1.6e+02 Score=23.31 Aligned_cols=34 Identities=26% Similarity=0.361 Sum_probs=28.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 16 PTTGEAIQKLRETEDMLIKKQEFLEKKIGEEINI 49 (65)
Q Consensus 16 ~~~~~aI~kLret~emL~KKe~~LekkI~~E~~~ 49 (65)
....+.+.+|+-.++.|.++=.-|++.|+.++.+
T Consensus 463 ~e~~~e~~~l~pkL~~l~~~Tr~Lq~~iE~~ISk 496 (507)
T PF05600_consen 463 QEAQEEQQELEPKLDALVERTRELQKQIEADISK 496 (507)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467788888888899999888899998888764
No 75
>PF15458 NTR2: Nineteen complex-related protein 2
Probab=28.38 E-value=1.6e+02 Score=21.07 Aligned_cols=32 Identities=22% Similarity=0.382 Sum_probs=28.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 14 KGPTTGEAIQKLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 14 ~~~~~~~aI~kLret~emL~KKe~~LekkI~~ 45 (65)
+-|+..+++.+|++++.-|+-.-..+..+|+.
T Consensus 202 pLP~L~~~~~rL~~~l~~le~~~~~~~~~l~~ 233 (254)
T PF15458_consen 202 PLPSLSECLERLRESLSSLEDSKSQLQQQLES 233 (254)
T ss_pred CCCchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34778899999999999999999999998876
No 76
>PF07860 CCD: WisP family C-Terminal Region; InterPro: IPR012421 This entry represents the C-terminal domain found in the Tropheryma whipplei WisP family of proteins [].
Probab=27.92 E-value=21 Score=23.95 Aligned_cols=8 Identities=38% Similarity=1.115 Sum_probs=6.1
Q ss_pred hhhhhcCC
Q psy13000 4 FKNIFGKT 11 (65)
Q Consensus 4 ~~~~FG~~ 11 (65)
|.++||.+
T Consensus 59 frklfgsr 66 (141)
T PF07860_consen 59 FRKLFGSR 66 (141)
T ss_pred HHHHhCCc
Confidence 57899974
No 77
>PRK14011 prefoldin subunit alpha; Provisional
Probab=27.48 E-value=1.9e+02 Score=19.26 Aligned_cols=33 Identities=24% Similarity=0.235 Sum_probs=26.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 16 PTTGEAIQKLRETEDMLIKKQEFLEKKIGEEIN 48 (65)
Q Consensus 16 ~~~~~aI~kLret~emL~KKe~~LekkI~~E~~ 48 (65)
-+..+||.-|...++.|++..+-|...|++-..
T Consensus 84 k~~~eA~~~~~~ri~~l~~~~~~l~~~i~~~~~ 116 (144)
T PRK14011 84 KDVSEVIEDFKKSVEELDKTKKEGNKKIEELNK 116 (144)
T ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357889999999999998888888887776433
No 78
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=27.30 E-value=1.2e+02 Score=16.83 Aligned_cols=26 Identities=27% Similarity=0.376 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 20 EAIQKLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 20 ~aI~kLret~emL~KKe~~LekkI~~ 45 (65)
.-|..|..+++-|.+..+-|+.+|+.
T Consensus 24 ~ei~~l~~~i~~l~~e~~~L~~ei~~ 49 (80)
T PF04977_consen 24 QEIAELQKEIEELKKENEELKEEIER 49 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555666666666666555554
No 79
>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function.
Probab=26.91 E-value=64 Score=21.50 Aligned_cols=8 Identities=25% Similarity=0.272 Sum_probs=3.9
Q ss_pred hhhhhhcC
Q psy13000 3 FFKNIFGK 10 (65)
Q Consensus 3 ~~~~~FG~ 10 (65)
-++++|-+
T Consensus 59 ~LK~~y~~ 66 (131)
T PF04859_consen 59 ELKRRYRK 66 (131)
T ss_pred HHHHHHHc
Confidence 34555554
No 80
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=26.59 E-value=1.3e+02 Score=17.00 Aligned_cols=26 Identities=35% Similarity=0.391 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 20 EAIQKLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 20 ~aI~kLret~emL~KKe~~LekkI~~ 45 (65)
+|=.=|+++-+-.+.|=+.+..+|++
T Consensus 5 EAkelLqe~~d~IEqkiedid~qIae 30 (46)
T PF08946_consen 5 EAKELLQEHYDNIEQKIEDIDEQIAE 30 (46)
T ss_dssp ----------THHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhHHHhHHHHHHHHHH
Confidence 34444566666666666666666643
No 81
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=26.11 E-value=1.7e+02 Score=18.08 Aligned_cols=30 Identities=30% Similarity=0.326 Sum_probs=23.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 16 PTTGEAIQKLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 16 ~~~~~aI~kLret~emL~KKe~~LekkI~~ 45 (65)
-+..+|+.-|...++.|++-.+-|+..+..
T Consensus 82 ~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~ 111 (126)
T TIGR00293 82 KDAEEAIEFLKKRIEELEKAIEKLQEALAE 111 (126)
T ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457888888888888888887777777665
No 82
>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=25.78 E-value=83 Score=25.28 Aligned_cols=22 Identities=27% Similarity=0.258 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 22 IQKLRETEDMLIKKQEFLEKKIG 44 (65)
Q Consensus 22 I~kLret~emL~KKe~~LekkI~ 44 (65)
|..|+ +||.|.|+-+-|+++++
T Consensus 27 ~~~~q-kie~L~kql~~Lk~q~~ 48 (489)
T PF11853_consen 27 IDLLQ-KIEALKKQLEELKAQQD 48 (489)
T ss_pred hHHHH-HHHHHHHHHHHHHHhhc
Confidence 33444 66667776666666655
No 83
>PF03681 UPF0150: Uncharacterised protein family (UPF0150); InterPro: IPR005357 This family of small proteins is uncharacterised. In Q9A3L8 from SWISSPROT this domain is found next to a DNA binding helix-turn-helix domain IPR002145 from INTERPRO, which suggests that this is some kind of ligand binding domain.; PDB: 2DSY_C 2YZT_A 3KWR_A.
Probab=25.21 E-value=1.1e+02 Score=15.99 Aligned_cols=18 Identities=28% Similarity=0.510 Sum_probs=15.4
Q ss_pred CCCCHHHHHHHHHHHHHH
Q psy13000 14 KGPTTGEAIQKLRETEDM 31 (65)
Q Consensus 14 ~~~~~~~aI~kLret~em 31 (65)
..+|..+|+..+++.+++
T Consensus 27 ~G~t~eea~~~~~eal~~ 44 (48)
T PF03681_consen 27 QGDTLEEALENAKEALEL 44 (48)
T ss_dssp EESSHHHHHHHHHHHHHH
T ss_pred cCCCHHHHHHHHHHHHHH
Confidence 357899999999998876
No 84
>PTZ00464 SNF-7-like protein; Provisional
Probab=25.12 E-value=2.1e+02 Score=20.22 Aligned_cols=22 Identities=14% Similarity=0.350 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy13000 24 KLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 24 kLret~emL~KKe~~LekkI~~ 45 (65)
-+++++..|++|.+.|++||..
T Consensus 15 t~~d~~~~l~~r~~~l~kKi~~ 36 (211)
T PTZ00464 15 TLEDASKRIGGRSEVVDARINK 36 (211)
T ss_pred CHHHHHHHHHHHHHHHHHHHHH
Confidence 5889999999999999999965
No 85
>PRK12855 hypothetical protein; Provisional
Probab=24.84 E-value=33 Score=21.92 Aligned_cols=10 Identities=10% Similarity=0.395 Sum_probs=6.7
Q ss_pred chhhhhhcCC
Q psy13000 2 SFFKNIFGKT 11 (65)
Q Consensus 2 s~~~~~FG~~ 11 (65)
++|+.+|||.
T Consensus 37 a~lr~ivGG~ 46 (103)
T PRK12855 37 ASVRDVVGGR 46 (103)
T ss_pred HHHHHHhcCc
Confidence 4567788864
No 86
>PF10400 Vir_act_alpha_C: Virulence activator alpha C-term; InterPro: IPR018309 Phenolic acids, also called substituted hydroxycinnamic acids, are abundant in the plant kingdom because they are involved in the structure of plant cell walls and are present in some vacuoles. In plant-soil ecosystems they are released as free acids by hemicellulases produced by several fungi and bacteria. Of these weak acids, the most abundant are p-coumaric, ferulic, and caffeic acids, considered to be natural toxins that inhibit the growth of microorganisms, especially at low pHs. In spite of this chemical stress, some bacteria can use phenolic acids as a sole source of carbon. For other microorganisms, these compounds induce a specific response by which the organism adapts to its environment. The ubiquitous lactic acid bacterium Lactobacillus plantarum exhibits an inducible phenolic acid decarboxylase (PAD) activity which converts these substrates into less-toxic vinyl phenol derivatives. PadR acts as a repressor of padA gene expression in the phenolic acid stress response []. This entry represents the C-terminal domain.; PDB: 1YG2_A.
Probab=24.11 E-value=1.5e+02 Score=16.86 Aligned_cols=29 Identities=21% Similarity=0.104 Sum_probs=21.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 15 GPTTGEAIQKLRETEDMLIKKQEFLEKKI 43 (65)
Q Consensus 15 ~~~~~~aI~kLret~emL~KKe~~LekkI 43 (65)
.-+|.++|.-|+++++..+.+-+.++...
T Consensus 16 ~~~~~~~~~~l~~~~~~~~~~l~~~~~~~ 44 (90)
T PF10400_consen 16 HLDPEEAIELLEERREQHEERLAEYEEIE 44 (90)
T ss_dssp TS-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45688888888888888887777776633
No 87
>PF10549 ORF11CD3: ORF11CD3 domain; InterPro: IPR018877 This entry represents the carboxy-terminal domain from ORF11 (Q9XJS9 from SWISSPROT), one of the proteins of Pseudomonas phage D3 (Bacteriophage D3). The function of these proteins are unknown [].
Probab=23.62 E-value=33 Score=19.92 Aligned_cols=29 Identities=21% Similarity=0.366 Sum_probs=18.6
Q ss_pred hhhhhcCC----CCCCCCHHHHHHHHHHHHHHH
Q psy13000 4 FKNIFGKT----EEKGPTTGEAIQKLRETEDML 32 (65)
Q Consensus 4 ~~~~FG~~----~~~~~~~~~aI~kLret~emL 32 (65)
+.++||.+ +..+|.-...|..|++.++++
T Consensus 21 ~AS~~GrgL~~Wk~~Kp~l~~ki~~l~~~~Q~~ 53 (57)
T PF10549_consen 21 IASLCGRGLNRWKWKKPQLEQKIEELEEQLQIT 53 (57)
T ss_pred HHHHHhHHHHHHHHhhHHHHHHHHHHHHHhhhc
Confidence 34566642 245666777788888877663
No 88
>KOG0353|consensus
Probab=23.27 E-value=1.3e+02 Score=24.70 Aligned_cols=27 Identities=44% Similarity=0.556 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 20 EAIQKLRETEDMLIKKQEFLEKKIGEE 46 (65)
Q Consensus 20 ~aI~kLret~emL~KKe~~LekkI~~E 46 (65)
.-|+.||+.-.-|..|...++++|+-+
T Consensus 25 ~qiqel~~kkqel~qkkk~i~kkielk 51 (695)
T KOG0353|consen 25 IQIQELREKKQELIQKKKAIEKKIELK 51 (695)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 358899999888888888999999843
No 89
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=23.06 E-value=2.7e+02 Score=19.39 Aligned_cols=29 Identities=17% Similarity=0.224 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 20 EAIQKLRETEDMLIKKQEFLEKKIGEEIN 48 (65)
Q Consensus 20 ~aI~kLret~emL~KKe~~LekkI~~E~~ 48 (65)
.-|..|...++.|+...++|+..++.+..
T Consensus 56 ~e~~~l~~e~e~L~~~~~~l~~~v~~q~~ 84 (251)
T PF11932_consen 56 AEYRQLEREIENLEVYNEQLERQVASQEQ 84 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556677777777777777777766543
No 90
>cd04777 HTH_MerR-like_sg1 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 1), N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=23.05 E-value=1.7e+02 Score=17.66 Aligned_cols=22 Identities=27% Similarity=0.268 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy13000 26 RETEDMLIKKQEFLEKKIGEEI 47 (65)
Q Consensus 26 ret~emL~KKe~~LekkI~~E~ 47 (65)
.+..++|.++.+.|+.+|++-.
T Consensus 80 ~~~~~~l~~~~~~l~~~i~~l~ 101 (107)
T cd04777 80 DYYKSFLKNKKDELEKEIEDLK 101 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3356778888888888877643
No 91
>cd04773 HTH_TioE_rpt2 Second Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD mainly contains the C-terminal or second repeat (rpt2) of these tandem MerR-like domain proteins.
Probab=22.97 E-value=1.9e+02 Score=17.68 Aligned_cols=25 Identities=12% Similarity=0.105 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 28 TEDMLIKKQEFLEKKIGEEINIART 52 (65)
Q Consensus 28 t~emL~KKe~~LekkI~~E~~~AKk 52 (65)
..++|+++...|+.+|.+.+.-...
T Consensus 79 ~~~~l~~~~~~l~~~~~~~~~~~~~ 103 (108)
T cd04773 79 LAAALEQRRVALTQRGRAMLDAAAA 103 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677888888888888877765544
No 92
>cd04664 Nudix_Hydrolase_7 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate s
Probab=22.94 E-value=85 Score=18.83 Aligned_cols=26 Identities=23% Similarity=0.210 Sum_probs=16.4
Q ss_pred hhhhhhcCCCCCCCCHHHHHH-HHHHH
Q psy13000 3 FFKNIFGKTEEKGPTTGEAIQ-KLRET 28 (65)
Q Consensus 3 ~~~~~FG~~~~~~~~~~~aI~-kLret 28 (65)
+.|.+.||+-...+++.+|+. .++|.
T Consensus 28 ~~w~~PgG~ve~~Es~~~aa~RE~~EE 54 (129)
T cd04664 28 GFWQSVTGGIEDGESPAEAARREVAEE 54 (129)
T ss_pred CcccccCcccCCCCCHHHHHHHHHHHH
Confidence 445566776667778877764 44443
No 93
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=22.94 E-value=1.6e+02 Score=20.47 Aligned_cols=20 Identities=15% Similarity=0.463 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy13000 24 KLRETEDMLIKKQEFLEKKI 43 (65)
Q Consensus 24 kLret~emL~KKe~~LekkI 43 (65)
+.|+.||-++.+..+|+.++
T Consensus 173 ~v~~eIe~~~~~~~~l~~~v 192 (262)
T PF14257_consen 173 RVRSEIEQLEGQLKYLDDRV 192 (262)
T ss_pred HHHHHHHHHHHHHHHHHHhh
Confidence 45555555666555555554
No 94
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=22.70 E-value=1.7e+02 Score=17.03 Aligned_cols=26 Identities=38% Similarity=0.455 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 18 TGEAIQKLRETEDMLIKKQEFLEKKI 43 (65)
Q Consensus 18 ~~~aI~kLret~emL~KKe~~LekkI 43 (65)
..+++..|.+..+-+++.-+-|++++
T Consensus 60 ~~~~~~~L~~~~~~~~~~i~~l~~~~ 85 (106)
T PF01920_consen 60 KEEAIEELEERIEKLEKEIKKLEKQL 85 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555554444444444443
No 95
>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin. Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].
Probab=22.70 E-value=3.2e+02 Score=20.20 Aligned_cols=36 Identities=19% Similarity=0.246 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhc
Q psy13000 19 GEAIQKLRETEDMLIKKQEFLEKKIG---EEINIARTNG 54 (65)
Q Consensus 19 ~~aI~kLret~emL~KKe~~LekkI~---~E~~~AKk~~ 54 (65)
.+-|+.++..++-|..-+.-|+.||+ .|++.+.+-.
T Consensus 175 ~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL 213 (267)
T PF10234_consen 175 QQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRL 213 (267)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455666778888889999999994 5788777654
No 96
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family. This family includes metal-fist type transcriptional repressors of copper transport systems such as copYZAB of Enterococcus hirae and tcrYAZB (transferble copper resistance) of an Enterocuccus faecium plasmid. High levels of copper can displace zinc and prevent binding by the repressor, activating efflux by copper resistance transporters. The most closely related proteins excluded by this model are antibiotic resistance regulators including the methicillin resistance regulatory protein MecI.
Probab=22.56 E-value=77 Score=20.28 Aligned_cols=27 Identities=26% Similarity=0.444 Sum_probs=13.6
Q ss_pred hhhhhhcCCC--------CCCCCHHHHHHHHHHHH
Q psy13000 3 FFKNIFGKTE--------EKGPTTGEAIQKLRETE 29 (65)
Q Consensus 3 ~~~~~FG~~~--------~~~~~~~~aI~kLret~ 29 (65)
++.++|||.. .....+.+-|.+|+..+
T Consensus 80 ~~~~~f~gs~~~ll~~l~~~~~ls~eele~L~~li 114 (130)
T TIGR02698 80 LFSRICSRKVGAVIADLIEESPLSQTDIEKLEKLL 114 (130)
T ss_pred HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence 3457888742 12333444466666533
No 97
>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation. During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....
Probab=22.51 E-value=2.4e+02 Score=18.67 Aligned_cols=29 Identities=21% Similarity=0.181 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 20 EAIQKLRETEDMLIKKQEFLEKKIGEEIN 48 (65)
Q Consensus 20 ~aI~kLret~emL~KKe~~LekkI~~E~~ 48 (65)
..|.-|++.++.+..|=.-||..|+..+.
T Consensus 104 ~~I~~Lq~~~~~~~~ki~~Le~~i~~~~~ 132 (146)
T PF08702_consen 104 SNIRVLQNILRSNRQKIQRLEQDIDQQER 132 (146)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34677778888888888888888877665
No 98
>cd04772 HTH_TioE_rpt1 First Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD contains the N-terminal or first repeat (rpt1) of these tandem MerR-like domain proteins.
Probab=22.43 E-value=1.5e+02 Score=17.98 Aligned_cols=19 Identities=5% Similarity=0.099 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy13000 27 ETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 27 et~emL~KKe~~LekkI~~ 45 (65)
+.+++|+.+.+.|+.+|++
T Consensus 76 ~~~~ll~~~~~~l~~~i~~ 94 (99)
T cd04772 76 SALALVDAAHALLQRYRQQ 94 (99)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5567788888877777765
No 99
>KOG2008|consensus
Probab=22.19 E-value=2.1e+02 Score=22.59 Aligned_cols=36 Identities=39% Similarity=0.337 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy13000 19 GEAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNG 54 (65)
Q Consensus 19 ~~aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~ 54 (65)
.+|=+++|+|.-|..++=.-|-+||...++++|.|.
T Consensus 37 e~ar~~Fretqv~~t~kl~el~Kk~~k~I~ksrpf~ 72 (426)
T KOG2008|consen 37 EDARQKFRETQVEATVKLDELVKKIGKAIEKSRPFW 72 (426)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccHH
Confidence 456678999999999999999999999999999886
No 100
>PF06717 DUF1202: Protein of unknown function (DUF1202); InterPro: IPR009592 This family consists of several hypothetical bacterial proteins of around 335 residues in length. Members of this family are found exclusively in Escherichia coli and Salmonella species and are often referred to as YggM proteins. The function of this family is unknown.
Probab=22.05 E-value=3.2e+02 Score=20.96 Aligned_cols=38 Identities=16% Similarity=0.019 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q psy13000 19 GEAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNGTK 56 (65)
Q Consensus 19 ~~aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~~k 56 (65)
.+++..-..+|.-|++...-|+++|...-..+..|-.+
T Consensus 144 ed~~~~kK~~I~~L~~qisaLdkqi~ai~Kkid~yWgk 181 (308)
T PF06717_consen 144 EDEYNRKKNKIPGLNKQISALDKQIVAINKKIDRYWGK 181 (308)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 45666778888899999999999998888888776543
No 101
>KOG2873|consensus
Probab=22.03 E-value=92 Score=23.56 Aligned_cols=32 Identities=19% Similarity=0.280 Sum_probs=22.4
Q ss_pred chhhhhhcCCCCCCCCHHHHHHH-HHHHHHHHH
Q psy13000 2 SFFKNIFGKTEEKGPTTGEAIQK-LRETEDMLI 33 (65)
Q Consensus 2 s~~~~~FG~~~~~~~~~~~aI~k-Lret~emL~ 33 (65)
+.|..+|++++..-+-..+++++ .|.++-+|+
T Consensus 225 alWRnlF~~r~~~D~~hle~vV~YvR~qv~~Ls 257 (284)
T KOG2873|consen 225 ALWRNLFSGRGNVDLVHLEAVVRYVRSQVYSLS 257 (284)
T ss_pred HHHHHHhCCCCCcCHHHHHHHHHHHHHHHHHHh
Confidence 35778999875555556677775 688877775
No 102
>PF13314 DUF4083: Domain of unknown function (DUF4083)
Probab=22.03 E-value=1.3e+02 Score=17.70 Aligned_cols=22 Identities=27% Similarity=0.237 Sum_probs=15.4
Q ss_pred CCCCCHHHHHHHHHHHHHHHHH
Q psy13000 13 EKGPTTGEAIQKLRETEDMLIK 34 (65)
Q Consensus 13 ~~~~~~~~aI~kLret~emL~K 34 (65)
.++.+..+-=+||-.-+++|||
T Consensus 36 ~kkq~~~~~eqKLDrIIeLLEK 57 (58)
T PF13314_consen 36 AKKQDVDSMEQKLDRIIELLEK 57 (58)
T ss_pred ccccchhHHHHHHHHHHHHHcc
Confidence 3445544555789999999887
No 103
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=21.02 E-value=1.6e+02 Score=16.10 Aligned_cols=24 Identities=29% Similarity=0.292 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 22 IQKLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 22 I~kLret~emL~KKe~~LekkI~~ 45 (65)
..++|-.+.-++++-+.+|+++++
T Consensus 43 ~~~~r~~~~~~~k~l~~le~e~~~ 66 (68)
T PF06305_consen 43 RLRLRRRIRRLRKELKKLEKELEQ 66 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467788888888888888888775
No 104
>PF07332 DUF1469: Protein of unknown function (DUF1469); InterPro: IPR009937 This entry represents proteins found in hypothetical bacterial proteins where is is annotated as ycf49 or ycf49-like. The function is not known.
Probab=20.91 E-value=1.5e+02 Score=18.07 Aligned_cols=20 Identities=30% Similarity=0.341 Sum_probs=18.0
Q ss_pred CCCCHHHHHHHHHHHHHHHH
Q psy13000 14 KGPTTGEAIQKLRETEDMLI 33 (65)
Q Consensus 14 ~~~~~~~aI~kLret~emL~ 33 (65)
.++.|.+++..|++..+.|.
T Consensus 100 ~~~~~~~t~~~l~~d~~~lk 119 (121)
T PF07332_consen 100 APPPFEETIAELKEDIAALK 119 (121)
T ss_pred CCCCHHHHHHHHHHHHHHhh
Confidence 68899999999999999875
No 105
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=20.47 E-value=2.8e+02 Score=20.49 Aligned_cols=31 Identities=29% Similarity=0.402 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 18 TGEAIQKLRETEDMLIKKQEFLEKKIGEEIN 48 (65)
Q Consensus 18 ~~~aI~kLret~emL~KKe~~LekkI~~E~~ 48 (65)
-+.+++.|+++++-|.+.-..|-+-|.+=..
T Consensus 4 rr~sl~el~~h~~~L~~~N~~L~~~IqdtE~ 34 (258)
T PF15397_consen 4 RRTSLQELKKHEDFLTKLNKELIKEIQDTED 34 (258)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHhHHh
Confidence 3678999999999999999999999987433
No 106
>PF13870 DUF4201: Domain of unknown function (DUF4201)
Probab=20.35 E-value=2.5e+02 Score=18.44 Aligned_cols=27 Identities=37% Similarity=0.479 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 18 TGEAIQKLRETEDMLIKKQEFLEKKIG 44 (65)
Q Consensus 18 ~~~aI~kLret~emL~KKe~~LekkI~ 44 (65)
..+.+..||..+..|..+=+.|+.+|.
T Consensus 150 ~~~~~~~l~~~i~~l~rk~~~l~~~i~ 176 (177)
T PF13870_consen 150 TKEEVEELRKEIKELERKVEILEMRIK 176 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 566777888888888888888777764
No 107
>PRK06342 transcription elongation factor regulatory protein; Validated
Probab=20.33 E-value=1.9e+02 Score=19.46 Aligned_cols=27 Identities=11% Similarity=0.074 Sum_probs=20.3
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy13000 17 TTGEAIQKLRETEDMLIKKQEFLEKKIGEEINIARTNG 54 (65)
Q Consensus 17 ~~~~aI~kLret~emL~KKe~~LekkI~~E~~~AKk~~ 54 (65)
-|.+...+|++.++-|. .+++.|+.++
T Consensus 31 lT~~G~~~L~~El~~L~-----------~~i~~Ar~~G 57 (160)
T PRK06342 31 VTEAGLKALEDQLAQAR-----------AAYEAAQAIE 57 (160)
T ss_pred ECHHHHHHHHHHHHHHH-----------HHHHHHHHCC
Confidence 47888999999999885 3566666665
No 108
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=20.12 E-value=1.7e+02 Score=18.92 Aligned_cols=26 Identities=23% Similarity=0.158 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy13000 18 TGEAIQKLRETEDMLIKKQEFLEKKI 43 (65)
Q Consensus 18 ~~~aI~kLret~emL~KKe~~LekkI 43 (65)
-.+-|.+|++.+..++.|+.-=--+|
T Consensus 8 I~~eI~kLqe~lk~~e~keAERigRi 33 (98)
T PRK13848 8 IREEIAKLQEQLKQAETREAERIGRI 33 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45678899999999988887544444
No 109
>TIGR00586 mutt mutator mutT protein. All proteins in this family for which functions are known are involved in repairing oxidative damage to dGTP (they are 8-oxo-dGTPases). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.02 E-value=1.5e+02 Score=17.45 Aligned_cols=20 Identities=30% Similarity=0.390 Sum_probs=11.8
Q ss_pred hhhhhcCCCCCCCCHHHHHH
Q psy13000 4 FKNIFGKTEEKGPTTGEAIQ 23 (65)
Q Consensus 4 ~~~~FG~~~~~~~~~~~aI~ 23 (65)
+|.|-||.-+...++.+|+.
T Consensus 32 ~w~~Pgg~ve~ge~~~~~~~ 51 (128)
T TIGR00586 32 LLEFPGGKEEGGETPEQAVV 51 (128)
T ss_pred eEECCCcccCCCCCHHHHHH
Confidence 34445554455678877764
No 110
>KOG3088|consensus
Probab=20.01 E-value=2.5e+02 Score=21.56 Aligned_cols=22 Identities=41% Similarity=0.462 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy13000 24 KLRETEDMLIKKQEFLEKKIGE 45 (65)
Q Consensus 24 kLret~emL~KKe~~LekkI~~ 45 (65)
.|.-...-|.+||+-|+.|-++
T Consensus 61 ~~~~kq~eL~~rqeEL~Rke~E 82 (313)
T KOG3088|consen 61 DLAKKQAELLKKQEELRRKEQE 82 (313)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444555566666666655443
Done!