Query 038426
Match_columns 245
No_of_seqs 21 out of 23
Neff 2.9
Searched_HMMs 46136
Date Fri Mar 29 10:56:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038426.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038426hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05400 FliT: Flagellar prote 87.5 7.2 0.00016 27.8 8.4 66 69-134 12-80 (84)
2 PF07784 DUF1622: Protein of u 82.3 3.4 7.3E-05 31.8 5.0 34 182-216 31-64 (77)
3 PRK06569 F0F1 ATP synthase sub 72.8 22 0.00049 30.7 7.8 67 69-135 34-103 (155)
4 TIGR02833 spore_III_AB stage I 72.1 15 0.00033 31.3 6.6 52 145-196 113-168 (170)
5 PRK08307 stage III sporulation 70.8 16 0.00035 31.1 6.5 66 124-196 100-169 (171)
6 PF01442 Apolipoprotein: Apoli 69.1 55 0.0012 25.8 9.2 27 104-130 154-180 (202)
7 PLN03098 LPA1 LOW PSII ACCUMUL 67.9 1.4E+02 0.0031 30.1 14.7 51 178-228 198-262 (453)
8 PF04971 Lysis_S: Lysis protei 66.4 15 0.00032 28.4 4.8 30 194-224 23-52 (68)
9 PF09548 Spore_III_AB: Stage I 66.3 17 0.00037 30.7 5.6 52 145-196 113-168 (170)
10 PF15169 DUF4564: Domain of un 66.1 5.7 0.00012 35.6 2.9 42 172-219 18-61 (187)
11 COG1382 GimC Prefoldin, chaper 64.9 84 0.0018 26.4 10.4 49 48-99 3-53 (119)
12 PF01442 Apolipoprotein: Apoli 63.5 72 0.0016 25.1 9.1 63 69-131 20-82 (202)
13 COG0559 LivH Branched-chain am 63.2 12 0.00026 35.1 4.5 38 182-219 242-283 (297)
14 PF14389 Lzipper-MIP1: Leucine 62.4 15 0.00033 28.5 4.4 27 50-76 53-79 (88)
15 PF05814 DUF843: Baculovirus p 61.2 15 0.00033 29.3 4.2 51 181-231 1-52 (83)
16 PF12666 PrgI: PrgI family pro 58.7 30 0.00064 26.1 5.2 44 175-219 15-58 (93)
17 PF15188 CCDC-167: Coiled-coil 55.5 48 0.001 26.3 6.1 73 116-196 5-83 (85)
18 PRK13454 F0F1 ATP synthase sub 52.4 1.5E+02 0.0033 25.4 9.5 39 69-107 55-96 (181)
19 KOG4643 Uncharacterized coiled 51.6 1.7E+02 0.0036 32.8 11.1 99 50-148 169-301 (1195)
20 PF06320 GCN5L1: GCN5-like pro 51.1 1.4E+02 0.003 24.6 9.5 78 50-135 39-118 (121)
21 TIGR01005 eps_transp_fam exopo 50.0 1.7E+02 0.0037 29.7 10.5 25 48-72 285-309 (754)
22 PF12925 APP_E2: E2 domain of 49.3 1.3E+02 0.0028 27.2 8.5 75 60-134 25-99 (193)
23 smart00502 BBC B-Box C-termina 45.5 1.2E+02 0.0027 22.4 11.2 44 96-139 59-102 (127)
24 KOG3501 Molecular chaperone Pr 45.0 1.7E+02 0.0037 24.7 8.0 59 79-138 30-89 (114)
25 TIGR01149 mtrG N5-methyltetrah 42.4 71 0.0015 24.9 5.0 19 181-199 48-66 (70)
26 PF06210 DUF1003: Protein of u 41.2 58 0.0013 26.5 4.7 39 175-215 1-42 (108)
27 smart00502 BBC B-Box C-termina 41.0 1.5E+02 0.0032 22.0 11.2 71 70-140 22-92 (127)
28 COG1390 NtpE Archaeal/vacuolar 40.7 2.6E+02 0.0056 24.7 9.2 76 74-152 12-93 (194)
29 PF09925 DUF2157: Predicted me 40.4 1E+02 0.0022 25.1 6.1 59 161-219 12-76 (145)
30 PRK01026 tetrahydromethanopter 37.9 94 0.002 24.6 5.2 51 113-199 19-69 (77)
31 PF04210 MtrG: Tetrahydrometha 37.6 94 0.002 24.2 5.1 50 112-197 15-64 (70)
32 PF11239 DUF3040: Protein of u 36.6 1.1E+02 0.0023 23.1 5.2 38 177-216 37-75 (82)
33 PF09323 DUF1980: Domain of un 36.2 82 0.0018 26.7 5.1 46 179-224 31-90 (182)
34 COG3402 Uncharacterized conser 35.5 97 0.0021 27.4 5.4 38 185-222 27-65 (161)
35 PRK14474 F0F1 ATP synthase sub 35.4 3.4E+02 0.0074 24.6 9.7 53 70-122 66-118 (250)
36 PRK11212 hypothetical protein; 35.4 1.3E+02 0.0027 27.1 6.3 41 167-207 55-97 (210)
37 COG3334 Uncharacterized conser 35.1 1.4E+02 0.0029 27.0 6.4 59 55-117 88-146 (192)
38 PF00038 Filament: Intermediat 35.0 2.3E+02 0.0049 25.3 7.8 62 76-137 162-223 (312)
39 PF11740 KfrA_N: Plasmid repli 34.8 2.1E+02 0.0046 22.0 7.5 32 103-134 82-113 (120)
40 cd06581 TM_PBP1_LivM_like Tran 34.8 50 0.0011 29.2 3.7 39 181-219 220-260 (268)
41 KOG4191 Histone acetyltransfer 33.9 1.8E+02 0.004 29.8 7.7 61 53-113 403-465 (516)
42 PF14007 YtpI: YtpI-like prote 33.4 1.3E+02 0.0028 24.0 5.4 30 178-208 32-61 (89)
43 PF01145 Band_7: SPFH domain / 32.6 1.6E+02 0.0034 23.2 5.8 71 62-133 102-178 (179)
44 PF09889 DUF2116: Uncharacteri 32.5 55 0.0012 24.3 3.0 21 178-198 37-57 (59)
45 COG4575 ElaB Uncharacterized c 32.1 1.8E+02 0.004 24.1 6.2 50 49-108 6-55 (104)
46 COG1322 Predicted nuclease of 31.4 5.4E+02 0.012 25.8 10.4 61 70-130 100-160 (448)
47 PRK09173 F0F1 ATP synthase sub 31.3 3E+02 0.0064 22.6 9.5 52 67-118 24-81 (159)
48 COG3067 NhaB Na+/H+ antiporter 31.3 35 0.00077 34.1 2.3 19 198-216 13-31 (516)
49 PF10981 DUF2788: Protein of u 31.0 68 0.0015 23.6 3.2 29 167-199 14-43 (52)
50 PF10198 Ada3: Histone acetylt 30.4 3.2E+02 0.007 22.8 9.2 68 49-116 31-100 (131)
51 COG2443 Sss1 Preprotein transl 30.1 72 0.0016 24.4 3.3 25 200-224 25-55 (65)
52 PF09788 Tmemb_55A: Transmembr 30.0 1E+02 0.0023 29.0 5.0 13 208-220 231-243 (256)
53 KOG3478 Prefoldin subunit 6, K 29.7 3.6E+02 0.0077 23.0 8.9 71 62-132 13-99 (120)
54 COG2917 Intracellular septatio 29.7 1.4E+02 0.0031 26.9 5.6 56 176-232 114-176 (180)
55 PF12010 DUF3502: Domain of un 29.0 87 0.0019 25.5 3.9 65 45-123 62-131 (134)
56 PF02656 DUF202: Domain of unk 28.0 2E+02 0.0044 20.6 5.3 47 175-221 10-60 (73)
57 TIGR02908 CoxD_Bacillus cytoch 27.6 1.4E+02 0.003 24.8 4.9 36 185-220 55-100 (110)
58 PRK10740 branched-chain amino 27.2 75 0.0016 29.1 3.6 40 180-219 251-293 (308)
59 PF06295 DUF1043: Protein of u 27.2 2.7E+02 0.0058 22.8 6.4 54 53-106 31-84 (128)
60 TIGR01834 PHA_synth_III_E poly 26.7 1.6E+02 0.0034 28.5 5.7 51 88-138 268-318 (320)
61 PRK10780 periplasmic chaperone 26.5 3.8E+02 0.0083 22.3 9.0 60 46-105 24-83 (165)
62 PF15122 TMEM206: TMEM206 prot 26.4 62 0.0013 30.9 2.9 26 195-220 242-267 (298)
63 PF12729 4HB_MCP_1: Four helix 26.0 2.2E+02 0.0049 21.5 5.5 20 179-198 4-23 (181)
64 PF11241 DUF3043: Protein of u 25.7 1.1E+02 0.0024 27.0 4.2 50 179-228 73-126 (170)
65 TIGR02231 conserved hypothetic 25.3 4.5E+02 0.0098 25.7 8.7 41 47-87 67-110 (525)
66 PRK10582 cytochrome o ubiquino 25.0 2.1E+02 0.0046 23.4 5.5 53 177-229 12-69 (109)
67 PF01956 DUF106: Integral memb 23.6 4.3E+02 0.0092 21.9 7.2 38 165-202 76-113 (168)
68 PRK08476 F0F1 ATP synthase sub 23.3 4.2E+02 0.0091 21.7 11.3 11 70-80 32-42 (141)
69 TIGR02896 spore_III_AF stage I 23.3 2E+02 0.0043 23.4 4.9 34 190-223 14-49 (106)
70 PF10458 Val_tRNA-synt_C: Valy 22.4 98 0.0021 22.4 2.8 32 113-144 1-32 (66)
71 PF03310 Cauli_DNA-bind: Cauli 21.7 2.5E+02 0.0054 23.9 5.3 44 79-122 13-58 (121)
72 PRK11618 inner membrane ABC tr 21.7 1.4E+02 0.0031 27.1 4.3 36 181-216 263-302 (317)
73 PF12597 DUF3767: Protein of u 21.5 2.9E+02 0.0062 22.8 5.6 49 180-228 41-91 (118)
74 KOG1108 Predicted heme/steroid 21.4 80 0.0017 30.0 2.6 27 23-50 230-256 (281)
75 PF04148 Erv26: Transmembrane 21.3 1.5E+02 0.0033 26.9 4.3 42 178-229 44-85 (211)
76 cd03401 Band_7_prohibitin Band 21.3 2.9E+02 0.0063 22.8 5.7 66 57-123 98-167 (196)
77 PRK02251 putative septation in 21.2 2.4E+02 0.0053 22.6 4.9 36 185-220 41-82 (87)
78 TIGR03017 EpsF chain length de 21.0 6.9E+02 0.015 23.4 10.4 36 45-80 248-283 (444)
79 COG3937 Uncharacterized conser 20.9 4.5E+02 0.0097 22.0 6.6 72 55-129 6-81 (108)
80 COG0670 Integral membrane prot 20.9 2.9E+02 0.0063 25.0 6.0 27 177-203 143-169 (233)
81 PRK10452 multidrug efflux syst 20.7 2.6E+02 0.0056 23.0 5.2 32 189-220 67-100 (120)
82 PF06781 UPF0233: Uncharacteri 20.6 1.2E+02 0.0027 24.1 3.2 24 201-224 28-51 (87)
83 TIGR03622 urea_t_UrtB_arc urea 20.4 1.4E+02 0.003 26.8 3.8 37 183-219 230-269 (283)
84 PRK00753 psbL photosystem II r 20.3 1.2E+02 0.0027 21.3 2.7 19 179-197 15-33 (39)
No 1
>PF05400 FliT: Flagellar protein FliT; InterPro: IPR008622 This entry represents the bacterial flagellar FliT family of dual-function proteins. Together with FlgN, FliT has been proposed to act as a substrate-specific export chaperone, facilitating the incorporation of the enterobacterial hook-associated axial proteins (HAPs) FlgK/FlgL and FliD into the growing flagellum []. FliT has also been shown to act as a transcriptional regulator in Salmonella typhimurium [].; GO: 0019861 flagellum; PDB: 3A7M_A 3H3M_B 3NKZ_C 2G42_A 2FZT_B.
Probab=87.49 E-value=7.2 Score=27.77 Aligned_cols=66 Identities=17% Similarity=0.221 Sum_probs=51.9
Q ss_pred hhhhhHHHHHHHHHHHHH---HHHHHHHHHHHHHhhhhhHHHhHHHHHHHHHHHHHHHHHHHhhHhhhh
Q 038426 69 RLTDYLDERSAYLTQFAE---EANAEFDKIGEDALKGLDEASSRIMENIESQMQAFEESAEENRMEIEE 134 (245)
Q Consensus 69 RvtdfvdErS~~L~~~Ae---eA~aEfDkIa~da~k~LDeA~~~ime~ies~m~afEE~~~~~R~EiE~ 134 (245)
+|.+.+++|..++..+.+ .-..++..-..+.+..+=+-...|+..++..++++...+...+.....
T Consensus 12 ~l~~l~~~R~~ll~~l~~~~~~~~~~~~~~~~~~l~~Il~~d~~i~~ll~~~~~~l~~~l~~~~~~~~~ 80 (84)
T PF05400_consen 12 ELEELLDERQELLERLFEEQAALSPPEQEELRELLRRILELDQEIRALLQARRDELKQELRQLRKGRKA 80 (84)
T ss_dssp HHHHHHHHHHHHHHHHHHCHTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhhccccCChhhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 488899999999988877 445555566667777777777899999999999999999887765543
No 2
>PF07784 DUF1622: Protein of unknown function (DUF1622); InterPro: IPR012427 This is a family of 14 highly conserved sequences, from hypothetical proteins expressed by both bacterial and archaeal species.
Probab=82.33 E-value=3.4 Score=31.81 Aligned_cols=34 Identities=26% Similarity=0.533 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHhhhccCCchhHHHHHHHHHH
Q 038426 182 NIYLAFIGLLVIGIADSFISSSDWRKVAVLGAILV 216 (245)
Q Consensus 182 nvYl~li~lL~l~Iv~~v~ss~dw~KvA~lg~Ilv 216 (245)
.+-+||=++++..|+.++. .|+|..+++||+|.+
T Consensus 31 ~l~lgLEfllaAdIl~Tv~-~pt~~~l~~La~Iv~ 64 (77)
T PF07784_consen 31 SLLLGLEFLLAADILRTVI-APTWEDLGILAAIVL 64 (77)
T ss_pred HHHHHHHHHHHHHHHHHHh-CCCHHHHHHHHHHHH
Confidence 4567788888888888887 899999999999865
No 3
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=72.80 E-value=22 Score=30.68 Aligned_cols=67 Identities=12% Similarity=0.255 Sum_probs=32.4
Q ss_pred hhhhhHHHHHHHHHH---HHHHHHHHHHHHHHHHhhhhhHHHhHHHHHHHHHHHHHHHHHHHhhHhhhhh
Q 038426 69 RLTDYLDERSAYLTQ---FAEEANAEFDKIGEDALKGLDEASSRIMENIESQMQAFEESAEENRMEIEEN 135 (245)
Q Consensus 69 RvtdfvdErS~~L~~---~AeeA~aEfDkIa~da~k~LDeA~~~ime~ies~m~afEE~~~~~R~EiE~~ 135 (245)
+|...+|+|...+.. -|+++++|-+.+-...-..|.+|..+.-+=-..-......+++..|...|++
T Consensus 34 pI~~iLe~R~~~I~~~L~~Ae~~k~eAe~l~a~ye~~L~~Ar~eA~~I~~e~~~~~~a~~~~~~~~~ea~ 103 (155)
T PRK06569 34 KAEEIFNNRQTNIQDNITQADTLTIEVEKLNKYYNEEIDKTNTEIDRLKKEKIDSLESEFLIKKKNLEQD 103 (155)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577888888776653 3455555555444444444444333332222222333333444445544443
No 4
>TIGR02833 spore_III_AB stage III sporulation protein AB. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage III sporulation protein AB.
Probab=72.05 E-value=15 Score=31.30 Aligned_cols=52 Identities=19% Similarity=0.259 Sum_probs=38.0
Q ss_pred cccccCCCCCcchh----hhHHHHHHHHHhhhhccCcchhHHHHHHHHHHHHHHHH
Q 038426 145 FFKSLGQKKPVGKA----KATEEVKKIKEITTESAGSKTRRNIYLAFIGLLVIGIA 196 (245)
Q Consensus 145 FFKsL~~~~p~~k~----~akeEaeKik~Var~sagSktR~nvYl~li~lL~l~Iv 196 (245)
|.++||.-....-. .+.++.+..-+-|++....+.|.+-|||+++=+.++|+
T Consensus 113 lG~~LG~~D~e~Q~k~i~L~~~~L~~~~~~a~~~~~k~~Kmy~~LGvl~Gl~lvIl 168 (170)
T TIGR02833 113 FGKTLGESDREGQQKHINLTLEHLERQLTEAEDEQKKNEKMYRYLGVLVGLMIVLL 168 (170)
T ss_pred HHHHHCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence 78888887421111 45667777777788888889999999999887777764
No 5
>PRK08307 stage III sporulation protein SpoAB; Provisional
Probab=70.85 E-value=16 Score=31.12 Aligned_cols=66 Identities=27% Similarity=0.322 Sum_probs=44.3
Q ss_pred HHHHhhHhhhhhhccCCCccccccccCCCCCcchh----hhHHHHHHHHHhhhhccCcchhHHHHHHHHHHHHHHHH
Q 038426 124 SAEENRMEIEENDSKRPERGLFFKSLGQKKPVGKA----KATEEVKKIKEITTESAGSKTRRNIYLAFIGLLVIGIA 196 (245)
Q Consensus 124 ~~~~~R~EiE~~e~~l~nEGlFFKsL~~~~p~~k~----~akeEaeKik~Var~sagSktR~nvYl~li~lL~l~Iv 196 (245)
...+.+.|+|...+ |.++||.-.-.+-. .+.++.+.--+-|++....+.|.+-|||+++=+.++|+
T Consensus 100 ~~~L~~~d~eiL~~-------lg~~LG~~D~e~Q~k~i~L~~e~L~~~~~~a~~~~~k~~Kmy~~LGvl~Gl~lvIl 169 (171)
T PRK08307 100 NTALKKEDIEILLQ-------FGKTLGQSDREGQQKHIRLALEHLEREEEEAEEEQKKNEKMYKYLGFLAGLLIVIL 169 (171)
T ss_pred ccCCCHHHHHHHHH-------HHHHHCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHH
Confidence 34444445544433 77888877421111 45677777777888888889999999999887777764
No 6
>PF01442 Apolipoprotein: Apolipoprotein A1/A4/E domain; InterPro: IPR000074 Exchangeable apolipoproteins (apoA, apoC and apoE) have the same genomic structure and are members of a multi-gene family that probably evolved from a common ancestral gene. This entry includes the ApoA1, ApoA4 and ApoE proteins. ApoA1 and ApoA4 are part of the APOA1/C3/A4/A5 gene cluster on chromosome 11 []. Apolipoproteins function in lipid transport as structural components of lipoprotein particles, cofactors for enzymes and ligands for cell-surface receptors. In particular, apoA1 is the major protein component of high-density lipoproteins; apoA4 is thought to act primarily in intestinal lipid absorption; and apoE is a blood plasma protein that mediates the transport and uptake of cholesterol and lipid by way of its high affinity interaction with different cellular receptors, including the low-density lipoprotein (LDL) receptor. Recent findings with apoA1 and apoE suggest that the tertiary structures of these two members of the human exchangeable apolipoprotein gene family are related []. The three-dimensional structure of the LDL receptor-binding domain of apoE indicates that the protein forms an unusually elongated four-helix bundle that may be stabilised by a tightly packed hydrophobic core that includes leucine zipper-type interactions and by numerous salt bridges on the mostly charged surface. Basic amino acids important for LDL receptor binding are clustered into a surface patch on one long helix [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region; PDB: 1YA9_A 3S84_A 1NFN_A 1LE2_A 1B68_A 1BZ4_A 1OEG_A 2L7B_A 1LE4_A 1EA8_A ....
Probab=69.09 E-value=55 Score=25.79 Aligned_cols=27 Identities=15% Similarity=0.299 Sum_probs=10.3
Q ss_pred hHHHhHHHHHHHHHHHHHHHHHHHhhH
Q 038426 104 DEASSRIMENIESQMQAFEESAEENRM 130 (245)
Q Consensus 104 DeA~~~ime~ies~m~afEE~~~~~R~ 130 (245)
++....+-..|+....++.+.+.....
T Consensus 154 ~~~~~~l~~~l~~~~~~l~~~l~~~~~ 180 (202)
T PF01442_consen 154 SERLEELRESLEEKAEELKETLDQRIE 180 (202)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333344444444433333
No 7
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=67.93 E-value=1.4e+02 Score=30.10 Aligned_cols=51 Identities=24% Similarity=0.228 Sum_probs=27.7
Q ss_pred chhHHHHHHHHHHHHHHHHhhh------ccCC----c----hhHHHHHHHHHHHHHHHHHHHhcC
Q 038426 178 KTRRNIYLAFIGLLVIGIADSF------ISSS----D----WRKVAVLGAILVPLLLQFLHEQGM 228 (245)
Q Consensus 178 ktR~nvYl~li~lL~l~Iv~~v------~ss~----d----w~KvA~lg~IlvaL~~Q~~yEq~~ 228 (245)
..|+.+|++|++--.++..-++ .++. + ..-+||=...++.++.-|..|+.-
T Consensus 198 ~~R~f~y~a~~asa~ig~~i~~~rl~~a~aG~~~ap~l~~~~~nlaI~igav~~f~~L~~~e~k~ 262 (453)
T PLN03098 198 GVRKFFYVAFTAAAGISTFFTVPRLIRAIQGGDGAPDVLETAGNAAINIGGIVAFVSLFLWENKK 262 (453)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCccHhHhhcccchHHHHHHHHHHHHHHHhcc
Confidence 4689999988654333333222 1332 2 455666555555555555566553
No 8
>PF04971 Lysis_S: Lysis protein S ; InterPro: IPR007054 The lysis S protein is a cytotoxic protein forming holes in membranes causing cell lysis. The action of Lysis S is independent of the proportion of acidic phospholipids in the membrane [].
Probab=66.41 E-value=15 Score=28.39 Aligned_cols=30 Identities=33% Similarity=0.664 Sum_probs=22.7
Q ss_pred HHHhhhccCCchhHHHHHHHHHHHHHHHHHH
Q 038426 194 GIADSFISSSDWRKVAVLGAILVPLLLQFLH 224 (245)
Q Consensus 194 ~Iv~~v~ss~dw~KvA~lg~IlvaL~~Q~~y 224 (245)
.+.|.+ ++.+|--++++|-|++++++=++.
T Consensus 23 ~lld~~-sp~qW~aIGvi~gi~~~~lt~ltN 52 (68)
T PF04971_consen 23 QLLDQF-SPSQWAAIGVIGGIFFGLLTYLTN 52 (68)
T ss_pred HHHhcc-CcccchhHHHHHHHHHHHHHHHhH
Confidence 344544 667899999999999888876653
No 9
>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=66.25 E-value=17 Score=30.67 Aligned_cols=52 Identities=25% Similarity=0.172 Sum_probs=36.8
Q ss_pred cccccCCCCCcchh----hhHHHHHHHHHhhhhccCcchhHHHHHHHHHHHHHHHH
Q 038426 145 FFKSLGQKKPVGKA----KATEEVKKIKEITTESAGSKTRRNIYLAFIGLLVIGIA 196 (245)
Q Consensus 145 FFKsL~~~~p~~k~----~akeEaeKik~Var~sagSktR~nvYl~li~lL~l~Iv 196 (245)
|.++||.-.-.+-. -+.++.+...+-|++....+.|.+-|+|+++=+.++|+
T Consensus 113 lg~~LG~~D~~~Q~k~i~l~~~~L~~~~~~a~~~~~~~~Klyr~LGvl~G~~lvIl 168 (170)
T PF09548_consen 113 LGKSLGYSDREMQEKHIELYLEQLEQQLEEAREEAKKKGKLYRSLGVLGGLFLVIL 168 (170)
T ss_pred HHHHHccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence 56666665311111 45677777788888999999999999999877766664
No 10
>PF15169 DUF4564: Domain of unknown function (DUF4564)
Probab=66.13 E-value=5.7 Score=35.61 Aligned_cols=42 Identities=29% Similarity=0.558 Sum_probs=33.3
Q ss_pred hhccCcchhHHHHHHHHHHHHHHHHhhhccCCc--hhHHHHHHHHHHHHH
Q 038426 172 TESAGSKTRRNIYLAFIGLLVIGIADSFISSSD--WRKVAVLGAILVPLL 219 (245)
Q Consensus 172 r~sagSktR~nvYl~li~lL~l~Iv~~v~ss~d--w~KvA~lg~IlvaL~ 219 (245)
+|..+||+ .+.|++++|++-+++++.+ |+=+-+.|.+|||+.
T Consensus 18 sp~~rsWs------l~~gi~siGl~~~yys~d~~~wK~fyv~~c~fva~~ 61 (187)
T PF15169_consen 18 SPGIRSWS------LLVGIASIGLAAAYYSSDSLLWKLFYVAGCLFVALQ 61 (187)
T ss_pred CCCccchh------hHHHHHhcccceeeecCCchHHHHHHHHHHHHHHHh
Confidence 45566666 6778889999999998854 888889999999874
No 11
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=64.95 E-value=84 Score=26.40 Aligned_cols=49 Identities=31% Similarity=0.348 Sum_probs=36.6
Q ss_pred CCChHHHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHH--HHHHHHHHHHHHHHH
Q 038426 48 EGDIKKQELLARIAMLQAQKVRLTDYLDERSAYLTQF--AEEANAEFDKIGEDA 99 (245)
Q Consensus 48 ~GD~~~Qe~La~iamLQ~~KvRvtdfvdErS~~L~~~--AeeA~aEfDkIa~da 99 (245)
.+-|.+|+.|++.-.||.+ +..++-.++.+=+++ .+.|..|+++|.+|+
T Consensus 3 ~lpp~~q~~l~q~QqLq~q---l~~~~~qk~~le~qL~E~~~al~Ele~l~eD~ 53 (119)
T COG1382 3 QLPPEVQAQLAQLQQLQQQ---LQKVILQKQQLEAQLKEIEKALEELEKLDEDA 53 (119)
T ss_pred CCCHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHhcCCccc
Confidence 4458999999887777765 455566666665554 568999999999996
No 12
>PF01442 Apolipoprotein: Apolipoprotein A1/A4/E domain; InterPro: IPR000074 Exchangeable apolipoproteins (apoA, apoC and apoE) have the same genomic structure and are members of a multi-gene family that probably evolved from a common ancestral gene. This entry includes the ApoA1, ApoA4 and ApoE proteins. ApoA1 and ApoA4 are part of the APOA1/C3/A4/A5 gene cluster on chromosome 11 []. Apolipoproteins function in lipid transport as structural components of lipoprotein particles, cofactors for enzymes and ligands for cell-surface receptors. In particular, apoA1 is the major protein component of high-density lipoproteins; apoA4 is thought to act primarily in intestinal lipid absorption; and apoE is a blood plasma protein that mediates the transport and uptake of cholesterol and lipid by way of its high affinity interaction with different cellular receptors, including the low-density lipoprotein (LDL) receptor. Recent findings with apoA1 and apoE suggest that the tertiary structures of these two members of the human exchangeable apolipoprotein gene family are related []. The three-dimensional structure of the LDL receptor-binding domain of apoE indicates that the protein forms an unusually elongated four-helix bundle that may be stabilised by a tightly packed hydrophobic core that includes leucine zipper-type interactions and by numerous salt bridges on the mostly charged surface. Basic amino acids important for LDL receptor binding are clustered into a surface patch on one long helix [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region; PDB: 1YA9_A 3S84_A 1NFN_A 1LE2_A 1B68_A 1BZ4_A 1OEG_A 2L7B_A 1LE4_A 1EA8_A ....
Probab=63.53 E-value=72 Score=25.13 Aligned_cols=63 Identities=22% Similarity=0.309 Sum_probs=32.6
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHhHHHHHHHHHHHHHHHHHHHhhHh
Q 038426 69 RLTDYLDERSAYLTQFAEEANAEFDKIGEDALKGLDEASSRIMENIESQMQAFEESAEENRME 131 (245)
Q Consensus 69 RvtdfvdErS~~L~~~AeeA~aEfDkIa~da~k~LDeA~~~ime~ies~m~afEE~~~~~R~E 131 (245)
+|...+++....|.+-.++....+..-..+.-..+....+.+-..|+.....+...+.....+
T Consensus 20 ~l~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~i~~~~~~~~~~l~~~~~~ 82 (202)
T PF01442_consen 20 RLEELSDEIADRLAEEIEALSERLESELEELSDRLEERLDEVKERIEERIEELKNSLDSSTSE 82 (202)
T ss_dssp CHCSCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555555555555555555555554444444555555555555555544444444444333
No 13
>COG0559 LivH Branched-chain amino acid ABC-type transport system, permease components [Amino acid transport and metabolism]
Probab=63.19 E-value=12 Score=35.06 Aligned_cols=38 Identities=32% Similarity=0.559 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHhhhcc----CCchhHHHHHHHHHHHHH
Q 038426 182 NIYLAFIGLLVIGIADSFIS----SSDWRKVAVLGAILVPLL 219 (245)
Q Consensus 182 nvYl~li~lL~l~Iv~~v~s----s~dw~KvA~lg~IlvaL~ 219 (245)
+++.+++|=+.+++++++++ +++|+++.+++++++-|+
T Consensus 242 Si~GA~~gglliG~~e~~~~~~~~~~~~~~~v~f~lli~vLl 283 (297)
T COG0559 242 SIPGAVLGGLLLGLAESLVSAKYFGSEYKDVVAFLLLILVLL 283 (297)
T ss_pred cHHHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHH
Confidence 58999999999999999887 368999999988776654
No 14
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=62.41 E-value=15 Score=28.49 Aligned_cols=27 Identities=33% Similarity=0.425 Sum_probs=24.8
Q ss_pred ChHHHHHHHHHHHHhhhhhhhhhhHHH
Q 038426 50 DIKKQELLARIAMLQAQKVRLTDYLDE 76 (245)
Q Consensus 50 D~~~Qe~La~iamLQ~~KvRvtdfvdE 76 (245)
++..|++|.+||+++..=+++..+|++
T Consensus 53 p~~~keLL~EIA~lE~eV~~LE~~v~~ 79 (88)
T PF14389_consen 53 PKKAKELLEEIALLEAEVAKLEQKVLS 79 (88)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 789999999999999999999888875
No 15
>PF05814 DUF843: Baculovirus protein of unknown function (DUF843); InterPro: IPR008561 This family consists of several unidentified baculovirus proteins of around 85 residues long with no known function.
Probab=61.21 E-value=15 Score=29.25 Aligned_cols=51 Identities=18% Similarity=0.131 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHhh-hccCCchhHHHHHHHHHHHHHHHHHHHhcCCch
Q 038426 181 RNIYLAFIGLLVIGIADS-FISSSDWRKVAVLGAILVPLLLQFLHEQGMLSE 231 (245)
Q Consensus 181 ~nvYl~li~lL~l~Iv~~-v~ss~dw~KvA~lg~IlvaL~~Q~~yEq~~~~~ 231 (245)
+++|..++++++++.+-- ..++++.==.-.+++++.-++.|+.|-..=|.+
T Consensus 1 M~i~~~~~~Li~~~fi~~k~~~~s~li~~~LilfviF~~~L~~yy~kteS~~ 52 (83)
T PF05814_consen 1 MFIYSLFLALIVLGFIFDKNEGFSELIITLLILFVIFFCVLQVYYIKTESTP 52 (83)
T ss_pred CcHHHHHHHHHHHHHHHccccchHHHHHHHHHHHHHHHHHHHHHHcCCCCcH
Confidence 468888888888876533 334455433445566666788999998666654
No 16
>PF12666 PrgI: PrgI family protein; InterPro: IPR024414 This family of bacterial proteins is functionally uncharacterised. Proteins in this family are typically between 116 and 146 amino acids in length. PrgI is found encoded on plasmids of Enterococcus faecalis, its function is not known.
Probab=58.66 E-value=30 Score=26.08 Aligned_cols=44 Identities=23% Similarity=0.121 Sum_probs=27.9
Q ss_pred cCcchhHHHHHHHHHHHHHHHHhhhccCCchhHHHHHHHHHHHHH
Q 038426 175 AGSKTRRNIYLAFIGLLVIGIADSFISSSDWRKVAVLGAILVPLL 219 (245)
Q Consensus 175 agSktR~nvYl~li~lL~l~Iv~~v~ss~dw~KvA~lg~IlvaL~ 219 (245)
.|-.-|+-+|++.++++++++.-.++..-. .-++.+.++++++.
T Consensus 15 ~GlT~RQl~~l~~~~~~~~~~~~~~~~~l~-~~~~~~~~i~~~~p 58 (93)
T PF12666_consen 15 FGLTLRQLICLAIGALVGVGVYLLLWFFLG-PDIASWIMIPIALP 58 (93)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHhcc-HHHHHHHHHHHHHH
Confidence 688899999999999988777665532211 33344444444433
No 17
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=55.51 E-value=48 Score=26.34 Aligned_cols=73 Identities=19% Similarity=0.331 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHhhHhhhhhhccCCCccccccccCCCCCcchhhhHHHHHHHHHhhhhc------cCcchhHHHHHHHHH
Q 038426 116 SQMQAFEESAEENRMEIEENDSKRPERGLFFKSLGQKKPVGKAKATEEVKKIKEITTES------AGSKTRRNIYLAFIG 189 (245)
Q Consensus 116 s~m~afEE~~~~~R~EiE~~e~~l~nEGlFFKsL~~~~p~~k~~akeEaeKik~Var~s------agSktR~nvYl~li~ 189 (245)
.+++-.||.+..=|-.+|..+++|....| +|.+++....|..-|+.+.... -.--.|+|.-++.+.
T Consensus 5 ~eId~lEekl~~cr~~le~ve~rL~~~eL--------s~e~R~~lE~E~~~l~~~l~~~E~eL~~LrkENrK~~~ls~~l 76 (85)
T PF15188_consen 5 KEIDGLEEKLAQCRRRLEAVESRLRRREL--------SPEARRSLEKELNELKEKLENNEKELKLLRKENRKSMLLSVAL 76 (85)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHcccCC--------ChHHHHHHHHHHHHHHHHhhccHHHHHHHHHhhhhhHHHHHHH
Confidence 46778899999999999999988764433 3556666677777777776543 333456777776655
Q ss_pred HHHHHHH
Q 038426 190 LLVIGIA 196 (245)
Q Consensus 190 lL~l~Iv 196 (245)
++.+.++
T Consensus 77 ~~v~~Lv 83 (85)
T PF15188_consen 77 FFVCFLV 83 (85)
T ss_pred HHHHHHH
Confidence 5555443
No 18
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=52.40 E-value=1.5e+02 Score=25.37 Aligned_cols=39 Identities=28% Similarity=0.268 Sum_probs=25.8
Q ss_pred hhhhhHHHHHHHHH---HHHHHHHHHHHHHHHHHhhhhhHHH
Q 038426 69 RLTDYLDERSAYLT---QFAEEANAEFDKIGEDALKGLDEAS 107 (245)
Q Consensus 69 RvtdfvdErS~~L~---~~AeeA~aEfDkIa~da~k~LDeA~ 107 (245)
+|..++|+|..++. +-|++++.|-+.+-...-..|..|-
T Consensus 55 PI~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~eye~~L~~Ar 96 (181)
T PRK13454 55 RIGAVLAERQGTITNDLAAAEELKQKAVEAEKAYNKALADAR 96 (181)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 69999999999984 4455555565555555555554443
No 19
>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]
Probab=51.56 E-value=1.7e+02 Score=32.84 Aligned_cols=99 Identities=22% Similarity=0.271 Sum_probs=73.3
Q ss_pred ChHHHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHH---HHHHHHHHHHHHHHhhhhhHHHh------------------
Q 038426 50 DIKKQELLARIAMLQAQKVRLTDYLDERSAYLTQFA---EEANAEFDKIGEDALKGLDEASS------------------ 108 (245)
Q Consensus 50 D~~~Qe~La~iamLQ~~KvRvtdfvdErS~~L~~~A---eeA~aEfDkIa~da~k~LDeA~~------------------ 108 (245)
...-+.+=+.+||+..-=+++--=++|.++.|.++- ++-++||+++-|..+.++|+|-.
T Consensus 169 ~~~~~hL~velAdle~kir~LrqElEEK~enll~lr~eLddleae~~klrqe~~e~l~ea~ra~~yrdeldalre~aer~ 248 (1195)
T KOG4643|consen 169 VKKNLHLEVELADLEKKIRTLRQELEEKFENLLRLRNELDDLEAEISKLRQEIEEFLDEAHRADRYRDELDALREQAERP 248 (1195)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhhcC
Confidence 456789999999999988999999999999998875 56789999999999999998642
Q ss_pred ------HHHHH--HHHHHHHHHHHHHHhhHhhhhhhccCC-----Cccccccc
Q 038426 109 ------RIMEN--IESQMQAFEESAEENRMEIEENDSKRP-----ERGLFFKS 148 (245)
Q Consensus 109 ------~ime~--ies~m~afEE~~~~~R~EiE~~e~~l~-----nEGlFFKs 148 (245)
++|+. .-+++-+++|-.+.--++.|+.+.+|. |||.-|.+
T Consensus 249 d~~ykerlmDs~fykdRveelkedN~vLleekeMLeeQLq~lrarse~~tles 301 (1195)
T KOG4643|consen 249 DTTYKERLMDSDFYKDRVEELKEDNRVLLEEKEMLEEQLQKLRARSEGATLES 301 (1195)
T ss_pred CCccchhhhhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhccccCChHH
Confidence 23333 334444444444444446666666665 88877765
No 20
>PF06320 GCN5L1: GCN5-like protein 1 (GCN5L1); InterPro: IPR009395 This family consists of several eukaryotic GCN5-like protein 1 (GCN5L1) sequences. The function of this family is unknown [,].
Probab=51.07 E-value=1.4e+02 Score=24.56 Aligned_cols=78 Identities=15% Similarity=0.183 Sum_probs=46.8
Q ss_pred ChHHHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHh--HHHHHHHHHHHHHHHHHHH
Q 038426 50 DIKKQELLARIAMLQAQKVRLTDYLDERSAYLTQFAEEANAEFDKIGEDALKGLDEASS--RIMENIESQMQAFEESAEE 127 (245)
Q Consensus 50 D~~~Qe~La~iamLQ~~KvRvtdfvdErS~~L~~~AeeA~aEfDkIa~da~k~LDeA~~--~ime~ies~m~afEE~~~~ 127 (245)
+.+++++..-...|..+-..|. .....|+++ ..+.-++.+....+|.|.|+ --++.||.+|..+++.++.
T Consensus 39 n~~v~~~~~Nqk~ie~e~k~L~-------~~~~~l~kq-t~qw~~~~~~~~~~LKEiGDveNWa~~iE~Dl~~i~~~L~~ 110 (121)
T PF06320_consen 39 NSRVSEAYENQKKIEKEAKQLQ-------RNTAKLAKQ-TDQWLKLVDSFNDALKEIGDVENWAEMIERDLRVIEETLRY 110 (121)
T ss_pred HHhHHHHHHhHHHHHHHHHHHH-------HHHHHHHHH-HHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666665555554433322 222333333 23344555555555656554 3688899999999999999
Q ss_pred hhHhhhhh
Q 038426 128 NRMEIEEN 135 (245)
Q Consensus 128 ~R~EiE~~ 135 (245)
....-+.+
T Consensus 111 v~~~~~~~ 118 (121)
T PF06320_consen 111 VYEGSEKE 118 (121)
T ss_pred HHhhhhhh
Confidence 88766544
No 21
>TIGR01005 eps_transp_fam exopolysaccharide transport protein family. The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.
Probab=50.04 E-value=1.7e+02 Score=29.71 Aligned_cols=25 Identities=28% Similarity=0.145 Sum_probs=19.7
Q ss_pred CCChHHHHHHHHHHHHhhhhhhhhh
Q 038426 48 EGDIKKQELLARIAMLQAQKVRLTD 72 (245)
Q Consensus 48 ~GD~~~Qe~La~iamLQ~~KvRvtd 72 (245)
..|+..|++-.+++.++.+...+..
T Consensus 285 ~~~~~i~~L~~~l~~l~~~~~~l~~ 309 (754)
T TIGR01005 285 KLEDLIQRLRERQAELRATIADLST 309 (754)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHH
Confidence 4579999999999999887665544
No 22
>PF12925 APP_E2: E2 domain of amyloid precursor protein; InterPro: IPR024329 Amyloid-beta precursor protein (APP, or A4) is associated with Alzheimer's disease (AD), because one of its breakdown products, amyloid-beta (A-beta), aggregates to form amyloid or senile plaques [, ]. Mutations in APP or in proteins that process APP have been linked with early-onset, familial AD. Individuals with Down's syndrome carry an extra copy of chromosome 21, which contains the APP gene, and almost invariably develop amyloid plaques and Alzheimer's symptoms. APP is important for the neurogenesis and neuronal regeneration, either through the intact protein, or through its many breakdown products []. APP consists of a large N-terminal extracellular region containing heparin-binding and copper-binding sites, a short hydrophobic transmembrane domain, and a short C-terminal intracellular domain. The N-terminal region is similar in structure to cysteine-rich growth factors and appears to function as a cell surface receptor, contributing to neurite growth, neuronal adhesion, axonogenesis and cell mobility []. APP acts as a kinesin I membrane receptor to mediate the axonal transport of beta-secretase and presenilin 1. The N-terminal domain can regulate neurite outgrowth through its binding to heparin and collagen I and IV, which are components of the extracellular matrix. APP is also coupled to apoptosis-inducing pathways, and is involved in copper homeostasis/oxidative stress through copper ion reduction, where copper-metallated APP induces neuronal death []. The C-terminal intracellular domain appears to be involved in transcription regulation through protein-protein interactions. APP can promote transcription activation through binding to APBB1/Tip60, and may bind to the adaptor protein FE65 to transactivate a wide variety of different promoters. APP can be processed by different sets of enzymes: In the non-amyloidogenic (non-plaque-forming) pathway, APP is cleaved by alpha-secretase to yield a soluble N-terminal sAPP-alpha (neuroprotective) and a membrane-bound CTF-alpha. CTF-alpha is broken-down by presenilin-containing gamma-secretase to yield soluble p3 and membrane-bound AICD (nuclear signalling). In the amyloidogenic pathway (plaque-forming), APP is broken down by beta-secretase to yield soluble sAPP-beta and membrane-bound CTF-beta. CTF-beta is broken down by gamma-secretase to yield soluble amyloid-beta and membrane-bound AICD. Amyloid-beta is required for neuronal function, but can aggregate to form amyloid plaques that seem to disrupt brain cells by clogging points of cell-cell contact. The E2 domain is the largest of the conserved domains in the amyloidogenic glycoproteins. The structure of E2 consists of two coiled-coil sub-structures connected through a continuous helix, and bears an unexpected resemblance to the spectrin family of protein structures. E2 can reversibly dimerise in solution, and the dimerisation occurs along the longest dimension of the molecule in an antiparallel orientation, which enables the N-terminal substructure of one monomer to pack against the C-terminal substructure of a second monomer. The high degree of conservation of residues at the putative dimer interface suggests that the E2 dimer observed in the crystal could be physiologically relevant. Heparin sulphate proteoglycans, the putative ligands for the precursor present in extracellular matrix, bind to E2 at a conserved and positively charged site near the dimer interface [].; PDB: 3K6B_A 3K66_A 1TKN_A 3NYL_A 3NYJ_A 3UMH_A 3UMK_A 3UMI_A 3QMK_B 3PMR_B ....
Probab=49.29 E-value=1.3e+02 Score=27.16 Aligned_cols=75 Identities=19% Similarity=0.267 Sum_probs=60.3
Q ss_pred HHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHhHHHHHHHHHHHHHHHHHHHhhHhhhh
Q 038426 60 IAMLQAQKVRLTDYLDERSAYLTQFAEEANAEFDKIGEDALKGLDEASSRIMENIESQMQAFEESAEENRMEIEE 134 (245)
Q Consensus 60 iamLQ~~KvRvtdfvdErS~~L~~~AeeA~aEfDkIa~da~k~LDeA~~~ime~ies~m~afEE~~~~~R~EiE~ 134 (245)
=..++..|.|+.+.--+|-.-+-+==++|.+-|..+=..--++.+..-..+++..-...+++|++.+.-|.+|++
T Consensus 25 h~~f~~Ak~rLe~~hr~r~~~VmkeW~eaE~~~~~l~~~DPk~Ae~~k~~m~~rFQ~~v~aLE~e~~~er~qL~~ 99 (193)
T PF12925_consen 25 HQRFKEAKERLEEKHRERMTKVMKEWSEAEERYKELPKADPKKAEQFKKEMTQRFQKTVQALEQEAAAERQQLVE 99 (193)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367888888998888888766666666787777766555566777778899999999999999999999998865
No 23
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=45.54 E-value=1.2e+02 Score=22.43 Aligned_cols=44 Identities=16% Similarity=0.274 Sum_probs=23.3
Q ss_pred HHHHhhhhhHHHhHHHHHHHHHHHHHHHHHHHhhHhhhhhhccC
Q 038426 96 GEDALKGLDEASSRIMENIESQMQAFEESAEENRMEIEENDSKR 139 (245)
Q Consensus 96 a~da~k~LDeA~~~ime~ies~m~afEE~~~~~R~EiE~~e~~l 139 (245)
.+..+..||......+..|+.++..++..+..-+.-++..++.+
T Consensus 59 e~~ll~~l~~~~~~~~~~l~~q~~~l~~~l~~l~~~~~~~e~~l 102 (127)
T smart00502 59 KKQLLEDLEEQKENKLKVLEQQLESLTQKQEKLSHAINFTEEAL 102 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555555666666655555555444444333
No 24
>KOG3501 consensus Molecular chaperone Prefoldin, subunit 1 [Posttranslational modification, protein turnover, chaperones]
Probab=45.03 E-value=1.7e+02 Score=24.70 Aligned_cols=59 Identities=14% Similarity=0.235 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhHHHhH-HHHHHHHHHHHHHHHHHHhhHhhhhhhcc
Q 038426 79 AYLTQFAEEANAEFDKIGEDALKGLDEASSR-IMENIESQMQAFEESAEENRMEIEENDSK 138 (245)
Q Consensus 79 ~~L~~~AeeA~aEfDkIa~da~k~LDeA~~~-ime~ies~m~afEE~~~~~R~EiE~~e~~ 138 (245)
.|-..+++.|+.|+--++++. +.-.-.|.. ++++..+--...|+.+..++..||+.+.+
T Consensus 30 nr~kk~~~l~~ke~~~~~de~-~~Y~svgrmF~l~dk~a~~s~leak~k~see~IeaLqkk 89 (114)
T KOG3501|consen 30 NRAKKISELAKKELEDVGDEK-AVYTSVGRMFMLSDKAAVRSHLEAKMKSSEEKIEALQKK 89 (114)
T ss_pred HHHHHHHHHHHHHHHHHhhHH-HHHHHHHHHHHcCcHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 455678888999998888887 444445554 45667777778888888889888877654
No 25
>TIGR01149 mtrG N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit G. coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranfersae is membrane-associated enzyme complex that uses methyl-transfer reaction to drive sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.
Probab=42.39 E-value=71 Score=24.90 Aligned_cols=19 Identities=26% Similarity=0.265 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 038426 181 RNIYLAFIGLLVIGIADSF 199 (245)
Q Consensus 181 ~nvYl~li~lL~l~Iv~~v 199 (245)
--+|++++|+|.+.+...+
T Consensus 48 GIlYG~viGlli~~~~~~l 66 (70)
T TIGR01149 48 GILYGLVIGLILFLIYILL 66 (70)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4589999999876655444
No 26
>PF06210 DUF1003: Protein of unknown function (DUF1003); InterPro: IPR010406 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=41.24 E-value=58 Score=26.46 Aligned_cols=39 Identities=21% Similarity=0.197 Sum_probs=26.1
Q ss_pred cCcchhHHHHHHHHHHHHHHHHhhhccC-CchhH--HHHHHHHH
Q 038426 175 AGSKTRRNIYLAFIGLLVIGIADSFISS-SDWRK--VAVLGAIL 215 (245)
Q Consensus 175 agSktR~nvYl~li~lL~l~Iv~~v~ss-~dw~K--vA~lg~Il 215 (245)
.||++ .||+..+++++-.+++.++-. +.|+. +..|.++|
T Consensus 1 ~GS~~--Fi~~~~~~~~~Wi~~N~~~~~~~~fDpyPFilLnl~l 42 (108)
T PF06210_consen 1 GGSWT--FIIIFTVFLAVWILLNILAPPRPAFDPYPFILLNLVL 42 (108)
T ss_pred CCcHH--HHHHHHHHHHHHHHHHhhccccCCCCCccHHHHHHHH
Confidence 47776 888888888887888886644 56755 44444433
No 27
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=40.99 E-value=1.5e+02 Score=22.02 Aligned_cols=71 Identities=13% Similarity=0.144 Sum_probs=55.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHhHHHHHHHHHHHHHHHHHHHhhHhhhhhhccCC
Q 038426 70 LTDYLDERSAYLTQFAEEANAEFDKIGEDALKGLDEASSRIMENIESQMQAFEESAEENRMEIEENDSKRP 140 (245)
Q Consensus 70 vtdfvdErS~~L~~~AeeA~aEfDkIa~da~k~LDeA~~~ime~ies~m~afEE~~~~~R~EiE~~e~~l~ 140 (245)
...-+++....|..-++.++.+++.--+.-..-|++--...+..|+..-.+-...+......++..-..+.
T Consensus 22 ~~~~l~~~~~~l~~~~~~~~~~I~~~f~~l~~~L~~~e~~ll~~l~~~~~~~~~~l~~q~~~l~~~l~~l~ 92 (127)
T smart00502 22 ALKQLISIIQEVEENAADVEAQIKAAFDELRNALNKRKKQLLEDLEEQKENKLKVLEQQLESLTQKQEKLS 92 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455667777777888888888888888888888888889999998888888888888888776655544
No 28
>COG1390 NtpE Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]
Probab=40.67 E-value=2.6e+02 Score=24.72 Aligned_cols=76 Identities=24% Similarity=0.305 Sum_probs=52.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHhHHHHHHHHHHHHHHHHHHHh------hHhhhhhhccCCCcccccc
Q 038426 74 LDERSAYLTQFAEEANAEFDKIGEDALKGLDEASSRIMENIESQMQAFEESAEEN------RMEIEENDSKRPERGLFFK 147 (245)
Q Consensus 74 vdErS~~L~~~AeeA~aEfDkIa~da~k~LDeA~~~ime~ies~m~afEE~~~~~------R~EiE~~e~~l~nEGlFFK 147 (245)
.++--+-+..+-++|..|+++|-..+.+..+++...+....+.++..--+..-.+ |..++..++-+.+ ||+
T Consensus 12 ~~~a~eeak~I~~eA~~eae~i~~ea~~~~~~~~~~~~~~~~~ea~~~~~~iis~A~le~r~~~Le~~ee~l~~---~~~ 88 (194)
T COG1390 12 LREAEEEAEEILEEAREEAEKIKEEAKREAEEAIEEILRKAEKEAERERQRIISSALLEARRKLLEAKEEILES---VFE 88 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHH
Confidence 4444556677888999999999999999999999999999888876655443332 3444444444434 665
Q ss_pred ccCCC
Q 038426 148 SLGQK 152 (245)
Q Consensus 148 sL~~~ 152 (245)
.++..
T Consensus 89 ~~~e~ 93 (194)
T COG1390 89 AVEEK 93 (194)
T ss_pred HHHHH
Confidence 55544
No 29
>PF09925 DUF2157: Predicted membrane protein (DUF2157); InterPro: IPR018677 This family of various hypothetical prokaryotic proteins has no known function.
Probab=40.37 E-value=1e+02 Score=25.07 Aligned_cols=59 Identities=22% Similarity=0.154 Sum_probs=30.6
Q ss_pred HHHHHHHHHhhhhc-cCcc-hhHHHHHHHHHHHHHHHHhhhcc---C-CchhHHHHHHHHHHHHH
Q 038426 161 TEEVKKIKEITTES-AGSK-TRRNIYLAFIGLLVIGIADSFIS---S-SDWRKVAVLGAILVPLL 219 (245)
Q Consensus 161 keEaeKik~Var~s-agSk-tR~nvYl~li~lL~l~Iv~~v~s---s-~dw~KvA~lg~IlvaL~ 219 (245)
.++++.+.+-..+. .++. ..+.++..=+.++.++|+-.|+. . +++-|+++..+++++..
T Consensus 12 ~~q~~~i~~~~~~~~~~~~~~~~~l~~lGall~~~gii~fvA~nW~~i~~~~k~~~~~~~~~~~~ 76 (145)
T PF09925_consen 12 PEQAEAILAFYGERPSRSSWLARILLYLGALLLGLGIILFVAANWDDIPRLAKLGLLLALLLLSY 76 (145)
T ss_pred HHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHH
Confidence 46667777666553 2222 22333333334455565555542 2 56677777666655443
No 30
>PRK01026 tetrahydromethanopterin S-methyltransferase subunit G; Provisional
Probab=37.94 E-value=94 Score=24.57 Aligned_cols=51 Identities=29% Similarity=0.483 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHhhHhhhhhhccCCCccccccccCCCCCcchhhhHHHHHHHHHhhhhccCcchhHHHHHHHHHHHH
Q 038426 113 NIESQMQAFEESAEENRMEIEENDSKRPERGLFFKSLGQKKPVGKAKATEEVKKIKEITTESAGSKTRRNIYLAFIGLLV 192 (245)
Q Consensus 113 ~ies~m~afEE~~~~~R~EiE~~e~~l~nEGlFFKsL~~~~p~~k~~akeEaeKik~Var~sagSktR~nvYl~li~lL~ 192 (245)
.+-.+++.+||..|-..+|+ ||.+|++. |.-. =-+|++++|+|.
T Consensus 19 ~i~~rLD~iEeKVEftn~Ei-------------~Qr~Gkkv----------------------GRDi-GIlYG~viGlli 62 (77)
T PRK01026 19 EIQKRLDEIEEKVEFTNAEI-------------FQRIGKKV----------------------GRDI-GILYGLVIGLLI 62 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHH-------------HHHHhHHh----------------------hhHH-HHHHHHHHHHHH
Confidence 34445556777777777776 66666652 2222 468999999988
Q ss_pred HHHHhhh
Q 038426 193 IGIADSF 199 (245)
Q Consensus 193 l~Iv~~v 199 (245)
+.+.-.+
T Consensus 63 ~~i~~~~ 69 (77)
T PRK01026 63 VLVYIIL 69 (77)
T ss_pred HHHHHHH
Confidence 7665443
No 31
>PF04210 MtrG: Tetrahydromethanopterin S-methyltransferase, subunit G ; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane
Probab=37.61 E-value=94 Score=24.22 Aligned_cols=50 Identities=28% Similarity=0.365 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHhhHhhhhhhccCCCccccccccCCCCCcchhhhHHHHHHHHHhhhhccCcchhHHHHHHHHHHH
Q 038426 112 ENIESQMQAFEESAEENRMEIEENDSKRPERGLFFKSLGQKKPVGKAKATEEVKKIKEITTESAGSKTRRNIYLAFIGLL 191 (245)
Q Consensus 112 e~ies~m~afEE~~~~~R~EiE~~e~~l~nEGlFFKsL~~~~p~~k~~akeEaeKik~Var~sagSktR~nvYl~li~lL 191 (245)
..+..+++++||..|-.-+|+ |+..|++. |.-. --+|++++|++
T Consensus 15 ~~i~~rLd~iEeKvEf~~~Ei-------------~Qr~Gkki----------------------GRDi-GIlYG~v~Gli 58 (70)
T PF04210_consen 15 NEIMKRLDEIEEKVEFTNAEI-------------AQRAGKKI----------------------GRDI-GILYGLVIGLI 58 (70)
T ss_pred HHHHHHHHHHHHHHHhHHHHH-------------HHHHhHHh----------------------hhHH-HHHHHHHHHHH
Confidence 345556667777777777666 44444441 2222 45899999888
Q ss_pred HHHHHh
Q 038426 192 VIGIAD 197 (245)
Q Consensus 192 ~l~Iv~ 197 (245)
.+-+.-
T Consensus 59 i~~~~~ 64 (70)
T PF04210_consen 59 IFIIYI 64 (70)
T ss_pred HHHHHH
Confidence 665543
No 32
>PF11239 DUF3040: Protein of unknown function (DUF3040); InterPro: IPR021401 Some members in this family of proteins with unknown function are annotated as membrane proteins however this cannot be confirmed.
Probab=36.57 E-value=1.1e+02 Score=23.13 Aligned_cols=38 Identities=13% Similarity=0.237 Sum_probs=20.7
Q ss_pred cchhHHHHHHHHHHHHHHHHhh-hccCCchhHHHHHHHHHH
Q 038426 177 SKTRRNIYLAFIGLLVIGIADS-FISSSDWRKVAVLGAILV 216 (245)
Q Consensus 177 SktR~nvYl~li~lL~l~Iv~~-v~ss~dw~KvA~lg~Ilv 216 (245)
+..|+.++..+.+++.++++=. ++.+..| +++.|+++.
T Consensus 37 ~~~r~~~~~~~~~v~gl~llv~G~~~~~~~--~~v~G~~v~ 75 (82)
T PF11239_consen 37 PSRRRRVLGVLLVVVGLALLVAGVVLSQPP--LGVAGFVVM 75 (82)
T ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHhhhH--HHHHHHHHH
Confidence 4445556666665555544333 4444445 777776544
No 33
>PF09323 DUF1980: Domain of unknown function (DUF1980); InterPro: IPR015402 Members of this occur in gene pairs with members of PF03773 from PFAM. The N-terminal region contains several predicted transmembrane helix regions while the few invariant residues (G, CxxD, and W) occur in the C-terminal region. Members of this family are found in a set of prokaryotic hypothetical proteins. Their exact function has not, as yet, been defined.
Probab=36.17 E-value=82 Score=26.72 Aligned_cols=46 Identities=28% Similarity=0.379 Sum_probs=32.8
Q ss_pred hhHHHHHHHHHHHHHHHHhhhc--cC-Cc-----------hhHHHHHHHHHHHHHHHHHH
Q 038426 179 TRRNIYLAFIGLLVIGIADSFI--SS-SD-----------WRKVAVLGAILVPLLLQFLH 224 (245)
Q Consensus 179 tR~nvYl~li~lL~l~Iv~~v~--ss-~d-----------w~KvA~lg~IlvaL~~Q~~y 224 (245)
-...+|++.++++.++++...- .. .. +++.++|+++++++++=|+.
T Consensus 31 ~~~~~~~a~i~l~ilai~q~~~~~~~~~~~~~~h~h~~~~~~~~~~y~l~~iPll~g~l~ 90 (182)
T PF09323_consen 31 YIPLLYFAAILLLILAIVQLWRWFRPKRRKEDCHDHGHSKSKKLWSYFLFLIPLLIGFLF 90 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccccccccccHHHHHHHHHHHHHHcC
Confidence 3456788888888888888743 22 11 37899999999988876553
No 34
>COG3402 Uncharacterized conserved protein [Function unknown]
Probab=35.47 E-value=97 Score=27.44 Aligned_cols=38 Identities=21% Similarity=0.504 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHhhhcc-CCchhHHHHHHHHHHHHHHHH
Q 038426 185 LAFIGLLVIGIADSFIS-SSDWRKVAVLGAILVPLLLQF 222 (245)
Q Consensus 185 l~li~lL~l~Iv~~v~s-s~dw~KvA~lg~IlvaL~~Q~ 222 (245)
++|++-+.+++.--.+. .|.|.-+|....++++.|.++
T Consensus 27 l~Ll~av~~~~~~~~~~~~~~w~~~a~~av~l~~~vv~l 65 (161)
T COG3402 27 LVLLIAVAAGVLLYFVGLDPNWSSVAAVAVILLAAVVTL 65 (161)
T ss_pred HHHHHHHHHHHHHheeccCCccHHHHHHHHHHHHHHHHh
Confidence 44444444444443334 478999998888888877765
No 35
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=35.45 E-value=3.4e+02 Score=24.57 Aligned_cols=53 Identities=19% Similarity=0.304 Sum_probs=23.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHhHHHHHHHHHHHHHH
Q 038426 70 LTDYLDERSAYLTQFAEEANAEFDKIGEDALKGLDEASSRIMENIESQMQAFE 122 (245)
Q Consensus 70 vtdfvdErS~~L~~~AeeA~aEfDkIa~da~k~LDeA~~~ime~ies~m~afE 122 (245)
+.+.=.++.+.+.+--.+|+.+.++|=+.+-...+.--.+..+.|+.+.+.+-
T Consensus 66 l~~a~~ea~~ii~~A~~eA~~~~~~il~~A~~ea~~~~~~a~~~ie~Ek~~a~ 118 (250)
T PRK14474 66 QQSLEQQRASFMAQAQEAADEQRQHLLNEAREDVATARDEWLEQLEREKQEFF 118 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444444444444444444444444444444333
No 36
>PRK11212 hypothetical protein; Provisional
Probab=35.44 E-value=1.3e+02 Score=27.10 Aligned_cols=41 Identities=22% Similarity=0.408 Sum_probs=25.0
Q ss_pred HHHhhhhccC-cchhHHHHHHHHHHHHHHHHhh-hccCCchhH
Q 038426 167 IKEITTESAG-SKTRRNIYLAFIGLLVIGIADS-FISSSDWRK 207 (245)
Q Consensus 167 ik~Var~sag-SktR~nvYl~li~lL~l~Iv~~-v~ss~dw~K 207 (245)
+-|+..|--| .+.|+.||+|++..+.+..+-. +...+.|+.
T Consensus 55 ~tDIl~EvyG~k~Ar~~V~~Gf~~~i~~~~~~~~l~~p~~~~~ 97 (210)
T PRK11212 55 ATDLTVRIFGAPLARRIIFAVMLPALLISYVISVLFYQGSWQG 97 (210)
T ss_pred HHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccch
Confidence 3466666644 4589999999987665543333 323345654
No 37
>COG3334 Uncharacterized conserved protein [Function unknown]
Probab=35.14 E-value=1.4e+02 Score=27.04 Aligned_cols=59 Identities=29% Similarity=0.342 Sum_probs=42.4
Q ss_pred HHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHhHHHHHHHHH
Q 038426 55 ELLARIAMLQAQKVRLTDYLDERSAYLTQFAEEANAEFDKIGEDALKGLDEASSRIMENIESQ 117 (245)
Q Consensus 55 e~La~iamLQ~~KvRvtdfvdErS~~L~~~AeeA~aEfDkIa~da~k~LDeA~~~ime~ies~ 117 (245)
+..-+|..|++-|-+..+++++|-..|.. +++|.+++.+=--+-=+-+..-||++|..+
T Consensus 88 ~~~E~lk~lE~~kae~k~~~e~re~~l~~----~qae~~klv~iY~~Mkp~~aA~~le~l~~e 146 (192)
T COG3334 88 EVNERLKALEKKKAELKDLEEEREGILRS----KQAEDGKLVKIYSKMKPDAAAAILENLPDE 146 (192)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHhhhhHHHHHHHcCChhhHHHHHHcCCHH
Confidence 34567888888889999999999877766 888889887543322234666777777654
No 38
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=34.98 E-value=2.3e+02 Score=25.32 Aligned_cols=62 Identities=23% Similarity=0.282 Sum_probs=48.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHhHHHHHHHHHHHHHHHHHHHhhHhhhhhhc
Q 038426 76 ERSAYLTQFAEEANAEFDKIGEDALKGLDEASSRIMENIESQMQAFEESAEENRMEIEENDS 137 (245)
Q Consensus 76 ErS~~L~~~AeeA~aEfDkIa~da~k~LDeA~~~ime~ies~m~afEE~~~~~R~EiE~~e~ 137 (245)
-++..|...-.+-.++||.+++.....++.....=++.+........+.+...+.|+-....
T Consensus 162 ~~~~dL~~~L~eiR~~ye~~~~~~~~e~e~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~ 223 (312)
T PF00038_consen 162 FRSSDLSAALREIRAQYEEIAQKNREELEEWYQSKLEELRQQSEKSSEELESAKEELKELRR 223 (312)
T ss_dssp -----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccccchhhhhhHHHHHHHHHhhhhhhhhhhcccccccccccccccccccchhHhHHHHHHh
Confidence 34566888888899999999999999999988888899988888888888888887744433
No 39
>PF11740 KfrA_N: Plasmid replication region DNA-binding N-term; InterPro: IPR021104 The KfrA family of protiens are encoded on plasmids, generally in or near gene clusters invloved in stable inheritance functions. These proteins are thought to form an all-helical structure, consisting of an N-terminal helix-turn-helix DNA binding domain and an extended coiled-coil tail. The best-characterised KfrA protein, encoded on the broad host-range Plasmid RK2, is a site-specific DNA-binding protein whose operator overlaps its own promoter. The DNA-binding domain is essential for function, while the coiled-coil domain is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning []. This entry represents the N-terminal DNA-binding domain.
Probab=34.85 E-value=2.1e+02 Score=21.99 Aligned_cols=32 Identities=22% Similarity=0.223 Sum_probs=14.2
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHHHHhhHhhhh
Q 038426 103 LDEASSRIMENIESQMQAFEESAEENRMEIEE 134 (245)
Q Consensus 103 LDeA~~~ime~ies~m~afEE~~~~~R~EiE~ 134 (245)
.++......+.++.++.+.+...+....+++.
T Consensus 82 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 113 (120)
T PF11740_consen 82 AEEELEAARAELEQERAAAEAELAEAEAQAEE 113 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333334444444444444444444444443
No 40
>cd06581 TM_PBP1_LivM_like Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of branched-chain amino acids (AAs). These types of transporters generally bind type 1 PBPs. PBP-dependent ABC transporters consist of a PBP, two TMs, and two cytoplasmic ABCs, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP, which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. E. coli LivM forms a heterodimer with another TM, LivH, to generate the transmembrane pore. LivH is not included in this subgroup. The LIV-1/LS transporter is comprised of two TMs (LivM and LivH), two ABCs (LivG and LivF), and one of two alternative PBPs, LivJ (LIV-BP) or LivK (LS-BP). In addition to transpo
Probab=34.77 E-value=50 Score=29.15 Aligned_cols=39 Identities=10% Similarity=0.179 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHHhhhccC--CchhHHHHHHHHHHHHH
Q 038426 181 RNIYLAFIGLLVIGIADSFISS--SDWRKVAVLGAILVPLL 219 (245)
Q Consensus 181 ~nvYl~li~lL~l~Iv~~v~ss--~dw~KvA~lg~IlvaL~ 219 (245)
-|++.+++|-+.+++++++.+. ++|+.+..+.++++.++
T Consensus 220 gs~~Ga~~gal~ig~l~~~~~~~~~~~~~~~~g~~li~~l~ 260 (268)
T cd06581 220 GSLLGPVLGAALLVLLPELLRSLGPGLRLLVFGLLLILVVL 260 (268)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3699999999999999997643 46888877777777764
No 41
>KOG4191 consensus Histone acetyltransferases PCAF/SAGA/ADA, subunit TADA3L/NGG1 [Chromatin structure and dynamics]
Probab=33.94 E-value=1.8e+02 Score=29.84 Aligned_cols=61 Identities=25% Similarity=0.303 Sum_probs=53.2
Q ss_pred HHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHH--HHHHHHHHHHHHhhhhhHHHhHHHHH
Q 038426 53 KQELLARIAMLQAQKVRLTDYLDERSAYLTQFAEE--ANAEFDKIGEDALKGLDEASSRIMEN 113 (245)
Q Consensus 53 ~Qe~La~iamLQ~~KvRvtdfvdErS~~L~~~Aee--A~aEfDkIa~da~k~LDeA~~~ime~ 113 (245)
.-|.||++-.+|+.=.-|++|=.++-.-|..+|++ |--||..+-+|.=|..++|.-++|..
T Consensus 403 dDEvlaeLR~lqaeLk~vS~~N~k~k~~Ll~la~eE~a~qe~~q~lddlDkqI~qaYvKr~r~ 465 (516)
T KOG4191|consen 403 DDEVLAELRKLQAELKAVSAHNRKKKHDLLRLAPEEMARQEFQQVLDDLDKQIEQAYVKRNRS 465 (516)
T ss_pred hHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67999999999999999999999999999999876 67788888888888888888777654
No 42
>PF14007 YtpI: YtpI-like protein
Probab=33.43 E-value=1.3e+02 Score=24.00 Aligned_cols=30 Identities=30% Similarity=0.454 Sum_probs=20.9
Q ss_pred chhHHHHHHHHHHHHHHHHhhhccCCchhHH
Q 038426 178 KTRRNIYLAFIGLLVIGIADSFISSSDWRKV 208 (245)
Q Consensus 178 ktR~nvYl~li~lL~l~Iv~~v~ss~dw~Kv 208 (245)
.+|.|+.+|+ +++.++|.+.+...+.++-+
T Consensus 32 ~aka~ialG~-fl~~fgiNQ~~~~~st~~~i 61 (89)
T PF14007_consen 32 SAKANIALGI-FLILFGINQMFLFGSTVRLI 61 (89)
T ss_pred HHHHHHHHHH-HHHHHHHHHHHHcccHHHHH
Confidence 3567888887 46678999998844444544
No 43
>PF01145 Band_7: SPFH domain / Band 7 family; InterPro: IPR001107 Band 7 protein is an integral membrane protein which is thought to regulate cation conductance. A variety of proteins belong to this family. These include the prohibitins, cytoplasmic anti-proliferative proteins and stomatin, an erythrocyte membrane protein. Bacterial HflC protein also belongs to this family. Note: Band 4.1 (IPR021187 from INTERPRO) and Band 7 proteins refer to human erythrocyte membrane proteins separated by SDS polyacrylamide gels and stained with coomassie blue [].; PDB: 2RPB_A 3BK6_B 1WIN_A.
Probab=32.63 E-value=1.6e+02 Score=23.22 Aligned_cols=71 Identities=21% Similarity=0.288 Sum_probs=43.7
Q ss_pred HHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHh----hhhhHHHhHHHHHHHHHHHHHHHH--HHHhhHhhh
Q 038426 62 MLQAQKVRLTDYLDERSAYLTQFAEEANAEFDKIGEDAL----KGLDEASSRIMENIESQMQAFEES--AEENRMEIE 133 (245)
Q Consensus 62 mLQ~~KvRvtdfvdErS~~L~~~AeeA~aEfDkIa~da~----k~LDeA~~~ime~ies~m~afEE~--~~~~R~EiE 133 (245)
+=..++.-+.++...|.+.-..+.+..+..++..|=.-. ..++ -...+.++|+..+.+-.+. .+.++++.|
T Consensus 102 r~~~~~~~~~~~~~~r~~~~~~v~~~l~~~~~~~Gi~i~~v~i~~~~-~~~~~~~~i~~~~~a~~~~~~~~~~~a~~e 178 (179)
T PF01145_consen 102 REVISSYSLEEIYSNREEIADEVREQLQEALEEYGIEITSVQITDID-PPQEVEEAIEEKQRAEQEAQQAEIERAEAE 178 (179)
T ss_dssp HHHHHCS-HHHHHHTHHHHHHHHHHHHHHHHGGGTEEEEEEEEEEEE-ECTTHHHHHHHHHHHHHHH-HHHHHHHHHH
T ss_pred heEeeeeehHHhhhhhhhhhHhHHHHHhhhccccEEEEEEEEEeecC-CCHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 344578889999999988878888888887777662110 1111 1235666677666666555 555555554
No 44
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=32.51 E-value=55 Score=24.33 Aligned_cols=21 Identities=29% Similarity=0.247 Sum_probs=15.9
Q ss_pred chhHHHHHHHHHHHHHHHHhh
Q 038426 178 KTRRNIYLAFIGLLVIGIADS 198 (245)
Q Consensus 178 ktR~nvYl~li~lL~l~Iv~~ 198 (245)
++|..+|+.++++|.+-++-.
T Consensus 37 ~~~~i~~~~~i~~l~v~~~~~ 57 (59)
T PF09889_consen 37 KTQYIFFGIFILFLAVWIFMT 57 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 688888888888777766543
No 45
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=32.12 E-value=1.8e+02 Score=24.07 Aligned_cols=50 Identities=26% Similarity=0.251 Sum_probs=30.7
Q ss_pred CChHHHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHh
Q 038426 49 GDIKKQELLARIAMLQAQKVRLTDYLDERSAYLTQFAEEANAEFDKIGEDALKGLDEASS 108 (245)
Q Consensus 49 GD~~~Qe~La~iamLQ~~KvRvtdfvdErS~~L~~~AeeA~aEfDkIa~da~k~LDeA~~ 108 (245)
++++++++++++-+ -+|+=-+.|..-+..|++|+++|=..+...|.++-+
T Consensus 6 ~~~~~~~l~~el~~----------L~d~lEevL~ssg~~a~~e~~~lR~r~~~~Lk~~r~ 55 (104)
T COG4575 6 TDDAIDQLLAELQE----------LLDTLEEVLKSSGSLAGDEAEELRSKAESALKEARD 55 (104)
T ss_pred hhhhHHHHHHHHHH----------HHHHHHHHHHhcccchhhHHHHHHHHHHHHHHHHHH
Confidence 34455666665443 355666677777777777777776666655555433
No 46
>COG1322 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]
Probab=31.36 E-value=5.4e+02 Score=25.84 Aligned_cols=61 Identities=20% Similarity=0.278 Sum_probs=47.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHhHHHHHHHHHHHHHHHHHHHhhH
Q 038426 70 LTDYLDERSAYLTQFAEEANAEFDKIGEDALKGLDEASSRIMENIESQMQAFEESAEENRM 130 (245)
Q Consensus 70 vtdfvdErS~~L~~~AeeA~aEfDkIa~da~k~LDeA~~~ime~ies~m~afEE~~~~~R~ 130 (245)
...--++=.+.+.++.++++.=|+.+.++..+.|+.--..+.+-+..++..+..+....|.
T Consensus 100 ~~ql~~~~~~~~~~i~e~~~~~~~el~~~~~~~Ll~~~~~~~e~f~e~l~~~~~~s~~~~~ 160 (448)
T COG1322 100 LAQLSSEFQELANEIFEELNRRLAELNQQNLKQLLKPLREVLEKFREQLEQRIHESAEERS 160 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455566777888999999999999999999999999999999999984444444443
No 47
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=31.32 E-value=3e+02 Score=22.62 Aligned_cols=52 Identities=17% Similarity=0.180 Sum_probs=29.4
Q ss_pred hhhhhhhHHHHHHHHHHH---HHHHHHHHHHHHHHHhhhhhHH---HhHHHHHHHHHH
Q 038426 67 KVRLTDYLDERSAYLTQF---AEEANAEFDKIGEDALKGLDEA---SSRIMENIESQM 118 (245)
Q Consensus 67 KvRvtdfvdErS~~L~~~---AeeA~aEfDkIa~da~k~LDeA---~~~ime~ies~m 118 (245)
+-.|.+++|+|.++...= |++++.|-..+-.+.-..|..| ...|+++...++
T Consensus 24 ~~pi~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~~~e~~L~~A~~ea~~ii~~A~~~a 81 (159)
T PRK09173 24 PGMIARSLDARADRIKNELAEARRLREEAQQLLAEYQRKRKEAEKEAADIVAAAEREA 81 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345899999999988653 4444555554444444444443 333444444443
No 48
>COG3067 NhaB Na+/H+ antiporter [Inorganic ion transport and metabolism]
Probab=31.27 E-value=35 Score=34.13 Aligned_cols=19 Identities=26% Similarity=0.611 Sum_probs=15.2
Q ss_pred hhccCCchhHHHHHHHHHH
Q 038426 198 SFISSSDWRKVAVLGAILV 216 (245)
Q Consensus 198 ~v~ss~dw~KvA~lg~Ilv 216 (245)
.+-.||||+|+|+++.+++
T Consensus 13 FLG~sP~WYKlai~~FLii 31 (516)
T COG3067 13 FLGQSPDWYKLAIIAFLII 31 (516)
T ss_pred hccCCCcHHHHHHHHHHHH
Confidence 3447899999999998765
No 49
>PF10981 DUF2788: Protein of unknown function (DUF2788); InterPro: IPR021249 This bacterial family of proteins have no known function.
Probab=31.00 E-value=68 Score=23.61 Aligned_cols=29 Identities=24% Similarity=0.327 Sum_probs=19.3
Q ss_pred HHHhhhhc-cCcchhHHHHHHHHHHHHHHHHhhh
Q 038426 167 IKEITTES-AGSKTRRNIYLAFIGLLVIGIADSF 199 (245)
Q Consensus 167 ik~Var~s-agSktR~nvYl~li~lL~l~Iv~~v 199 (245)
|.|++|+| +|.--|..+|++| .++.+..+
T Consensus 14 I~dl~kks~agkfG~~ilf~vL----glG~~GFi 43 (52)
T PF10981_consen 14 IWDLAKKSKAGKFGTFILFLVL----GLGCAGFI 43 (52)
T ss_pred HHHHHHhcCCCCcchhHHHHHH----HHHHHHHH
Confidence 67888776 7777777777766 55555444
No 50
>PF10198 Ada3: Histone acetyltransferases subunit 3; InterPro: IPR019340 This entry is found in Ada3 and homologous proteins which function as part of histone acetyltransferase complexes []. Ada3 is an essential component of the Ada transcriptional coactivator (alteration/deficiency in activation) complex. It plays a key role in linking histone acetyltransferase-containing complexes to p53 (tumour suppressor protein) thereby regulating p53 acetylation, stability and transcriptional activation following DNA damage [].
Probab=30.38 E-value=3.2e+02 Score=22.80 Aligned_cols=68 Identities=24% Similarity=0.284 Sum_probs=52.3
Q ss_pred CChHHHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHH--HHHHHHHHHHHHhhhhhHHHhHHHHHHHH
Q 038426 49 GDIKKQELLARIAMLQAQKVRLTDYLDERSAYLTQFAEE--ANAEFDKIGEDALKGLDEASSRIMENIES 116 (245)
Q Consensus 49 GD~~~Qe~La~iamLQ~~KvRvtdfvdErS~~L~~~Aee--A~aEfDkIa~da~k~LDeA~~~ime~ies 116 (245)
.+..-=|.+++|-++|..=-.++.+=..|-.-|..+|++ |.-||-.+-++.-+..++|..+.|...-.
T Consensus 31 ~~~eDDEI~aeLR~lQ~eLr~~~~~N~~rk~rL~~~~~e~ma~QE~~~~l~~lD~~V~~aY~Kr~~~~~k 100 (131)
T PF10198_consen 31 DNREDDEISAELRRLQAELREQSAHNNARKKRLLKIAKEEMARQEYKRILDDLDKQVEQAYKKRMRARKK 100 (131)
T ss_pred cCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 334445789999999998888888888888888888876 56788888777777777777777765543
No 51
>COG2443 Sss1 Preprotein translocase subunit Sss1 [Intracellular trafficking and secretion]
Probab=30.11 E-value=72 Score=24.39 Aligned_cols=25 Identities=24% Similarity=0.530 Sum_probs=20.0
Q ss_pred ccCCch------hHHHHHHHHHHHHHHHHHH
Q 038426 200 ISSSDW------RKVAVLGAILVPLLLQFLH 224 (245)
Q Consensus 200 ~ss~dw------~KvA~lg~IlvaL~~Q~~y 224 (245)
..-|+| -|++.+|+++++++-=+||
T Consensus 25 arKP~~eEy~~~aKi~~~Gi~liG~IGfiI~ 55 (65)
T COG2443 25 ARKPDWEEYSKIAKITGLGILLIGIIGFIIY 55 (65)
T ss_pred HhCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355888 6899999999998876665
No 52
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=30.04 E-value=1e+02 Score=29.00 Aligned_cols=13 Identities=31% Similarity=0.585 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHH
Q 038426 208 VAVLGAILVPLLL 220 (245)
Q Consensus 208 vA~lg~IlvaL~~ 220 (245)
++..+++|+|++.
T Consensus 231 ~~wv~~~l~a~~~ 243 (256)
T PF09788_consen 231 VSWVGLFLIALIC 243 (256)
T ss_pred HHHHHHHHHHHHH
Confidence 4455666666553
No 53
>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]
Probab=29.69 E-value=3.6e+02 Score=23.03 Aligned_cols=71 Identities=25% Similarity=0.415 Sum_probs=47.3
Q ss_pred HHhhhhhhhhhhHHHHHHHHHHHHHH--HHHHHHHHHHHHh-----------hhhhHHHhHH---HHHHHHHHHHHHHHH
Q 038426 62 MLQAQKVRLTDYLDERSAYLTQFAEE--ANAEFDKIGEDAL-----------KGLDEASSRI---MENIESQMQAFEESA 125 (245)
Q Consensus 62 mLQ~~KvRvtdfvdErS~~L~~~Aee--A~aEfDkIa~da~-----------k~LDeA~~~i---me~ies~m~afEE~~ 125 (245)
-+|....-+..|+.-|..+=+++.|+ -++|||.++.|.. ..|.||-.-| ++-|++++-.+|.++
T Consensus 13 kyq~LQk~l~k~~~~rqkle~qL~Enk~V~~Eldlle~d~~VYKliGpvLvkqel~EAr~nV~kRlefI~~Eikr~e~~i 92 (120)
T KOG3478|consen 13 KYQNLQKELEKYVESRQKLETQLQENKIVLEELDLLEEDSNVYKLIGPVLVKQELEEARTNVGKRLEFISKEIKRLENQI 92 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhcccchHHHHhcchhhHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 34444448899999999999999987 5799999998864 3566654333 444555555555554
Q ss_pred HHhhHhh
Q 038426 126 EENRMEI 132 (245)
Q Consensus 126 ~~~R~Ei 132 (245)
+-.-.+.
T Consensus 93 ~d~q~e~ 99 (120)
T KOG3478|consen 93 RDSQEEF 99 (120)
T ss_pred HHHHHHH
Confidence 4444333
No 54
>COG2917 Intracellular septation protein A [Cell division and chromosome partitioning]
Probab=29.69 E-value=1.4e+02 Score=26.88 Aligned_cols=56 Identities=20% Similarity=0.178 Sum_probs=33.2
Q ss_pred CcchhHHHHHHHHHHHHHHHHhh-hc---cCCch---hHHHHHHHHHHHHHHHHHHHhcCCchh
Q 038426 176 GSKTRRNIYLAFIGLLVIGIADS-FI---SSSDW---RKVAVLGAILVPLLLQFLHEQGMLSET 232 (245)
Q Consensus 176 gSktR~nvYl~li~lL~l~Iv~~-v~---ss~dw---~KvA~lg~IlvaL~~Q~~yEq~~~~~~ 232 (245)
..|.|-|+=-++ +.+..++++- |+ |...| +-.+++++.|+..+.|-+|=..-.++.
T Consensus 114 ~~W~~Ln~~W~~-FFlf~ai~N~yV~~~fs~d~WV~FKvfG~~~ltlvf~l~q~~~i~rh~~~~ 176 (180)
T COG2917 114 EVWRKLNLRWAL-FFLFCAIANEYVARNFSTDTWVNFKVFGLTPLTLIFTLIQGPYIYRHLPKE 176 (180)
T ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHHhCCCCeEEEeehhhhhHHHHHHHHHHHHHHHHhcCcc
Confidence 345555543332 2333444444 22 33458 445689999999999999976655443
No 55
>PF12010 DUF3502: Domain of unknown function (DUF3502); InterPro: IPR022627 This domain is about 140 amino acids in length and is functionally uncharacterised. It is found in bacteria C-terminal to PF01547 from PFAM.
Probab=29.03 E-value=87 Score=25.53 Aligned_cols=65 Identities=17% Similarity=0.215 Sum_probs=43.0
Q ss_pred CCCCC----ChHHHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHH-hHHHHHHHHHHH
Q 038426 45 SPSEG----DIKKQELLARIAMLQAQKVRLTDYLDERSAYLTQFAEEANAEFDKIGEDALKGLDEAS-SRIMENIESQMQ 119 (245)
Q Consensus 45 ~~~~G----D~~~Qe~La~iamLQ~~KvRvtdfvdErS~~L~~~AeeA~aEfDkIa~da~k~LDeA~-~~ime~ies~m~ 119 (245)
+|--| +..++.-+|.+..+. ++|...+.-..-+ .|..-...+..|..|| ++|++-+-.|++
T Consensus 62 s~~~GF~fD~s~Vk~Eiaa~~~v~-------------~~Y~~~L~~G~vd-~e~~~~~~~~kLk~AGidkV~~E~QkQld 127 (134)
T PF12010_consen 62 SPLLGFTFDPSPVKNEIAACSNVW-------------SEYYPPLETGLVD-PEEALPEFNEKLKAAGIDKVIAELQKQLD 127 (134)
T ss_pred CcccCeeECCchhHHHHHHHHHHH-------------HHHHHHHHccCCC-HHHHHHHHHHHHHHhChHHHHHHHHHHHH
Confidence 45555 556666666655543 3455555555555 6666666777788877 678999999999
Q ss_pred HHHH
Q 038426 120 AFEE 123 (245)
Q Consensus 120 afEE 123 (245)
+|-.
T Consensus 128 a~~~ 131 (134)
T PF12010_consen 128 AFLA 131 (134)
T ss_pred HHHH
Confidence 8843
No 56
>PF02656 DUF202: Domain of unknown function (DUF202); InterPro: IPR003807 This entry describes proteins of unknown function.
Probab=27.97 E-value=2e+02 Score=20.57 Aligned_cols=47 Identities=23% Similarity=0.083 Sum_probs=28.9
Q ss_pred cCcchhHHHHHHHHHHHHHHHHhhhccC----CchhHHHHHHHHHHHHHHH
Q 038426 175 AGSKTRRNIYLAFIGLLVIGIADSFISS----SDWRKVAVLGAILVPLLLQ 221 (245)
Q Consensus 175 agSktR~nvYl~li~lL~l~Iv~~v~ss----~dw~KvA~lg~IlvaL~~Q 221 (245)
-=+|.|--++++.+|++.+......-.+ ....++..+.++++++++-
T Consensus 10 ~LaW~Rt~l~l~~~g~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 (73)
T PF02656_consen 10 FLAWIRTALALVGVGLALLRFFSLDHPSSSASRRVSKVLGLLLIVLGLLTL 60 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHHHHHHHH
Confidence 3367888888888877766655443222 2345666666666666553
No 57
>TIGR02908 CoxD_Bacillus cytochrome c oxidase, subunit IVB. This model represents a small clade of cytochrome oxidase subunit IV's found in the Bacilli.
Probab=27.63 E-value=1.4e+02 Score=24.84 Aligned_cols=36 Identities=11% Similarity=0.259 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHhhhc----------cCCchhHHHHHHHHHHHHHH
Q 038426 185 LAFIGLLVIGIADSFI----------SSSDWRKVAVLGAILVPLLL 220 (245)
Q Consensus 185 l~li~lL~l~Iv~~v~----------ss~dw~KvA~lg~IlvaL~~ 220 (245)
..++.++.+++++.+. ++.+|..+-+++.+||++++
T Consensus 55 ~~~~~I~~lAvvQi~VqL~yFLHm~~k~~~~~~~~if~gi~va~~t 100 (110)
T TIGR02908 55 FVIPFILLLAAVQVAFQLYYFMHMKDKGHEVPAQFIYGGVFVTMLV 100 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHheeeCCCccchHHHHHHHHHHHHHHH
No 58
>PRK10740 branched-chain amino acid transporter permease subunit LivH; Reviewed
Probab=27.23 E-value=75 Score=29.11 Aligned_cols=40 Identities=33% Similarity=0.537 Sum_probs=29.1
Q ss_pred hHHHHHHHHHHHHHHHHhhhcc---CCchhHHHHHHHHHHHHH
Q 038426 180 RRNIYLAFIGLLVIGIADSFIS---SSDWRKVAVLGAILVPLL 219 (245)
Q Consensus 180 R~nvYl~li~lL~l~Iv~~v~s---s~dw~KvA~lg~IlvaL~ 219 (245)
+.+++.+++|-+.+++++.+.+ +++|+.+..+.++++.++
T Consensus 251 ~gs~~G~i~Gal~l~~~e~l~~~~~~~~~~~~~~~~~li~vll 293 (308)
T PRK10740 251 IGSIPGAMIGGLILGIAEALSSAYLSTEYKDVVSFALLILVLL 293 (308)
T ss_pred CCccHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 3568999999999999998664 257877766655555443
No 59
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=27.18 E-value=2.7e+02 Score=22.82 Aligned_cols=54 Identities=17% Similarity=0.244 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHH
Q 038426 53 KQELLARIAMLQAQKVRLTDYLDERSAYLTQFAEEANAEFDKIGEDALKGLDEA 106 (245)
Q Consensus 53 ~Qe~La~iamLQ~~KvRvtdfvdErS~~L~~~AeeA~aEfDkIa~da~k~LDeA 106 (245)
.+|+-.....|...|-.|++.++.=++.|.+++++-+.=|+-+++-+..=++..
T Consensus 31 ~~eL~~~k~el~~yk~~V~~HF~~ta~Ll~~l~~~Y~~l~~Hla~~a~~Ll~~~ 84 (128)
T PF06295_consen 31 EQELEQAKQELEQYKQEVNDHFAQTAELLDNLTQDYQKLYQHLAKGAEELLPDE 84 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCc
Confidence 466667778899999999999999999999999999999999998887766543
No 60
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=26.74 E-value=1.6e+02 Score=28.47 Aligned_cols=51 Identities=12% Similarity=0.200 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHhhhhhHHHhHHHHHHHHHHHHHHHHHHHhhHhhhhhhcc
Q 038426 88 ANAEFDKIGEDALKGLDEASSRIMENIESQMQAFEESAEENRMEIEENDSK 138 (245)
Q Consensus 88 A~aEfDkIa~da~k~LDeA~~~ime~ies~m~afEE~~~~~R~EiE~~e~~ 138 (245)
.+..+|.+.+..++.|+....+=|..+...++++|.+.+.-+.+++..+.+
T Consensus 268 lr~~~qe~~e~~L~~LnlPTRsElDe~~krL~ELrR~vr~L~k~l~~l~~~ 318 (320)
T TIGR01834 268 LRIQQQEIVEALLKMLNLPTRSELDEAHQRIQQLRREVKSLKKRLGDLEAN 318 (320)
T ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 345678888888888888888888889999999999888888888776654
No 61
>PRK10780 periplasmic chaperone; Provisional
Probab=26.51 E-value=3.8e+02 Score=22.35 Aligned_cols=60 Identities=10% Similarity=0.159 Sum_probs=48.6
Q ss_pred CCCCChHHHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH
Q 038426 46 PSEGDIKKQELLARIAMLQAQKVRLTDYLDERSAYLTQFAEEANAEFDKIGEDALKGLDE 105 (245)
Q Consensus 46 ~~~GD~~~Qe~La~iamLQ~~KvRvtdfvdErS~~L~~~AeeA~aEfDkIa~da~k~LDe 105 (245)
..=|=.+.|..|.+.-..+.-.-++....+.+..-|.....+-+.+.+++-.++..--+.
T Consensus 24 ~KIg~Vd~q~il~~~p~~k~~~~~le~~~~~~q~el~~~~~elq~~~~~~q~~~~~ms~~ 83 (165)
T PRK10780 24 DKIAIVNMGSIFQQVPQRTGVSKQLENEFKGRASELQRMETDLQAKMQKLQRDGSTMKGS 83 (165)
T ss_pred cCeEEeeHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCHH
Confidence 345666779999999999888999999999999999999999888888887775443333
No 62
>PF15122 TMEM206: TMEM206 protein family
Probab=26.38 E-value=62 Score=30.92 Aligned_cols=26 Identities=19% Similarity=0.535 Sum_probs=21.6
Q ss_pred HHhhhccCCchhHHHHHHHHHHHHHH
Q 038426 195 IADSFISSSDWRKVAVLGAILVPLLL 220 (245)
Q Consensus 195 Iv~~v~ss~dw~KvA~lg~IlvaL~~ 220 (245)
-|..|.+...|.-+|+||.+|++|+-
T Consensus 242 ~v~dIiTanpWs~ia~lCGvFlaLfK 267 (298)
T PF15122_consen 242 EVRDIITANPWSTIAILCGVFLALFK 267 (298)
T ss_pred HHHHHhhCCcHHHHHHHHHHHHHHHH
Confidence 34556678899999999999999973
No 63
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=26.05 E-value=2.2e+02 Score=21.47 Aligned_cols=20 Identities=15% Similarity=0.247 Sum_probs=10.1
Q ss_pred hhHHHHHHHHHHHHHHHHhh
Q 038426 179 TRRNIYLAFIGLLVIGIADS 198 (245)
Q Consensus 179 tR~nvYl~li~lL~l~Iv~~ 198 (245)
.|.-++++|++++.+.++-+
T Consensus 4 I~~KL~~~f~~~~~l~~~~~ 23 (181)
T PF12729_consen 4 IRTKLILGFGLIILLLLIVG 23 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44555555555554444443
No 64
>PF11241 DUF3043: Protein of unknown function (DUF3043); InterPro: IPR021403 Some members in this family of proteins with unknown function are annotated as membrane proteins. This cannot be confirmed.
Probab=25.71 E-value=1.1e+02 Score=26.97 Aligned_cols=50 Identities=20% Similarity=0.282 Sum_probs=28.0
Q ss_pred hhHHHHHHHHHHHHHHHHhhhc-cCC---chhHHHHHHHHHHHHHHHHHHHhcC
Q 038426 179 TRRNIYLAFIGLLVIGIADSFI-SSS---DWRKVAVLGAILVPLLLQFLHEQGM 228 (245)
Q Consensus 179 tR~nvYl~li~lL~l~Iv~~v~-ss~---dw~KvA~lg~IlvaL~~Q~~yEq~~ 228 (245)
+|+||=-+||-+..+.|+-+++ .++ -|--+++|+++++.++==|+.-..+
T Consensus 73 sR~~i~e~fmP~alv~lv~~~v~~~~~~~~~~~~~~~~~~~~~iid~~~l~r~v 126 (170)
T PF11241_consen 73 SRRNIGEFFMPVALVLLVLSFVVPSPQVQLYVTLAMYVLLLLVIIDGVILGRRV 126 (170)
T ss_pred cccchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4667666666665555555555 333 3566666766666655444443333
No 65
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=25.31 E-value=4.5e+02 Score=25.73 Aligned_cols=41 Identities=24% Similarity=0.263 Sum_probs=30.4
Q ss_pred CCCChHHHHHHHHHHHHhhhhhhhhh---hHHHHHHHHHHHHHH
Q 038426 47 SEGDIKKQELLARIAMLQAQKVRLTD---YLDERSAYLTQFAEE 87 (245)
Q Consensus 47 ~~GD~~~Qe~La~iamLQ~~KvRvtd---fvdErS~~L~~~Aee 87 (245)
...+++++++=.+|..++...-++.+ =++.+-++|..+++.
T Consensus 67 ~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~ 110 (525)
T TIGR02231 67 RPDPERLAELRKQIRELEAELRDLEDRGDALKALAKFLEDIREG 110 (525)
T ss_pred cCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 34577888988999988888877765 556666777777653
No 66
>PRK10582 cytochrome o ubiquinol oxidase subunit IV; Provisional
Probab=25.01 E-value=2.1e+02 Score=23.42 Aligned_cols=53 Identities=13% Similarity=0.175 Sum_probs=30.2
Q ss_pred cchhHHHHHHHHHHHHHHHHhhhc--cC--Cchh-HHHHHHHHHHHHHHHHHHHhcCC
Q 038426 177 SKTRRNIYLAFIGLLVIGIADSFI--SS--SDWR-KVAVLGAILVPLLLQFLHEQGML 229 (245)
Q Consensus 177 SktR~nvYl~li~lL~l~Iv~~v~--ss--~dw~-KvA~lg~IlvaL~~Q~~yEq~~~ 229 (245)
..+.+---.|++.-+.+|++-... ++ |.+- =.+++++.++-+++|+.|==-+.
T Consensus 12 hgs~k~yviGFiLSliLT~i~F~lv~~~~~~~~~~~~~i~~lA~vQi~VqL~~FLHl~ 69 (109)
T PRK10582 12 HGSVKTYMTGFILSIILTVIPFWMVMTGAASPAVILGTILAMAVVQILVHLVCFLHMN 69 (109)
T ss_pred cCcHHHHHHHHHHHHHHHHHHHHHHHHccCChhHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 345555556777777777777633 32 2222 22344555567778888754444
No 67
>PF01956 DUF106: Integral membrane protein DUF106; InterPro: IPR002809 This entry represents a group of eukaryotic and archaeal proteins that have no known function. Members are predicted to be integral membrane proteins.; GO: 0016020 membrane
Probab=23.62 E-value=4.3e+02 Score=21.89 Aligned_cols=38 Identities=11% Similarity=0.004 Sum_probs=29.1
Q ss_pred HHHHHhhhhccCcchhHHHHHHHHHHHHHHHHhhhccC
Q 038426 165 KKIKEITTESAGSKTRRNIYLAFIGLLVIGIADSFISS 202 (245)
Q Consensus 165 eKik~Var~sagSktR~nvYl~li~lL~l~Iv~~v~ss 202 (245)
+.+.+...+-....-+.+++..+..++.+..+..++++
T Consensus 76 ~~~~~~~~~~~~~~mK~~~~~~v~~i~i~~wi~~~f~g 113 (168)
T PF01956_consen 76 MELMEKQQEMMMMMMKPMFVTMVPQIPIFYWINYFFSG 113 (168)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhh
Confidence 33444555556777889999999999999999998876
No 68
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=23.29 E-value=4.2e+02 Score=21.74 Aligned_cols=11 Identities=36% Similarity=0.691 Sum_probs=4.8
Q ss_pred hhhhHHHHHHH
Q 038426 70 LTDYLDERSAY 80 (245)
Q Consensus 70 vtdfvdErS~~ 80 (245)
|..++|+|.++
T Consensus 32 i~~~l~~R~~~ 42 (141)
T PRK08476 32 LLKFMDNRNAS 42 (141)
T ss_pred HHHHHHHHHHH
Confidence 34444444443
No 69
>TIGR02896 spore_III_AF stage III sporulation protein AF. This family represents the stage III sporulation protein AF of the bacterial endospore formation program, which exists in some but not all members of the Firmicutes (formerly called low-GC Gram-positives). The C-terminal region of this protein is poorly conserved, so only the N-terminal region, which includes two predicted transmembrane domains, is included in the seed alignment.
Probab=23.26 E-value=2e+02 Score=23.39 Aligned_cols=34 Identities=26% Similarity=0.496 Sum_probs=22.7
Q ss_pred HHHHHHHhhhccCCchhHHH--HHHHHHHHHHHHHH
Q 038426 190 LLVIGIADSFISSSDWRKVA--VLGAILVPLLLQFL 223 (245)
Q Consensus 190 lL~l~Iv~~v~ss~dw~KvA--~lg~IlvaL~~Q~~ 223 (245)
++.+++++-+.++...+|.. +.|++|+.++.+=+
T Consensus 14 ~il~t~~~~llP~~~~kkYvr~v~Gl~Li~~il~Pi 49 (106)
T TIGR02896 14 ILLATILEMLLPNSSLKKYVKFVVGLILMVVILNPI 49 (106)
T ss_pred HHHHHHHHHHCCCccHHHHHHHHHHHHHHHHHHHHH
Confidence 34667777777777766653 56777777766644
No 70
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=22.43 E-value=98 Score=22.43 Aligned_cols=32 Identities=22% Similarity=0.401 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHhhHhhhhhhccCCCccc
Q 038426 113 NIESQMQAFEESAEENRMEIEENDSKRPERGL 144 (245)
Q Consensus 113 ~ies~m~afEE~~~~~R~EiE~~e~~l~nEGl 144 (245)
+++.+...++..++.-..+|+..+.+|.|+|.
T Consensus 1 D~~~E~~rL~Kel~kl~~~i~~~~~kL~n~~F 32 (66)
T PF10458_consen 1 DVEAEIERLEKELEKLEKEIERLEKKLSNENF 32 (66)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHCSTTH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHcCccc
Confidence 46788888888889899999999999999983
No 71
>PF03310 Cauli_DNA-bind: Caulimovirus DNA-binding protein; InterPro: IPR004986 The gene III product (P15) of cauliflower mosaic virus (CaMV) is a DNA binding protein in which the DNA binding activity is located on its C-terminal part. A family of related proteins is expressed by other members of the Caulimoviridae.; GO: 0003677 DNA binding; PDB: 3F6N_A 3K4T_D.
Probab=21.67 E-value=2.5e+02 Score=23.86 Aligned_cols=44 Identities=16% Similarity=0.373 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH--hhhhhHHHhHHHHHHHHHHHHHH
Q 038426 79 AYLTQFAEEANAEFDKIGEDA--LKGLDEASSRIMENIESQMQAFE 122 (245)
Q Consensus 79 ~~L~~~AeeA~aEfDkIa~da--~k~LDeA~~~ime~ies~m~afE 122 (245)
+.|+.+.++-++-+++++.-- ...|+.++++||.+|=.+|..+|
T Consensus 13 ~~lk~~~~~i~ailek~~s~~~~~e~lEsiAAKIIkDisdkIdkCe 58 (121)
T PF03310_consen 13 QELKKIESDIKAILEKLQSTEQDQENLESIAAKIIKDISDKIDKCE 58 (121)
T ss_dssp HHHHHHHHHHHHHHHHHHTS--HHHHHHHHHHHHHHHHHHHHHT-T
T ss_pred HHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHHHhch
Confidence 446667777777778877333 36789999999999999999885
No 72
>PRK11618 inner membrane ABC transporter permease protein YjfF; Provisional
Probab=21.66 E-value=1.4e+02 Score=27.13 Aligned_cols=36 Identities=25% Similarity=0.618 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHhhhcc----CCchhHHHHHHHHHH
Q 038426 181 RNIYLAFIGLLVIGIADSFIS----SSDWRKVAVLGAILV 216 (245)
Q Consensus 181 ~nvYl~li~lL~l~Iv~~v~s----s~dw~KvA~lg~Ilv 216 (245)
-++...++|.+.+++++...+ -+.|....++|++++
T Consensus 263 gs~~G~~iGal~l~~l~~~~~~~~~~~~~~~~~~~G~ili 302 (317)
T PRK11618 263 GTVLGTLFGVLIQGLIQTYITFDGTLSSWWTKIVIGILLF 302 (317)
T ss_pred CchHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence 468899999999999999653 244444456666655
No 73
>PF12597 DUF3767: Protein of unknown function (DUF3767); InterPro: IPR022533 This group of proteins includes mitochodrial cytochrome c oxidase proteins [], and some transmembrane domain-containing proteins of unknown function known as FAM36A. Proteins in this family are typically between 112 and 199 amino acids in length.
Probab=21.49 E-value=2.9e+02 Score=22.76 Aligned_cols=49 Identities=16% Similarity=0.017 Sum_probs=34.3
Q ss_pred hHHHHHHHHHHHHHHHHhhhccCCch--hHHHHHHHHHHHHHHHHHHHhcC
Q 038426 180 RRNIYLAFIGLLVIGIADSFISSSDW--RKVAVLGAILVPLLLQFLHEQGM 228 (245)
Q Consensus 180 R~nvYl~li~lL~l~Iv~~v~ss~dw--~KvA~lg~IlvaL~~Q~~yEq~~ 228 (245)
|.-+-.|+.+-+++|.+-+++.++.| -..||.|++|++++.=..|-..-
T Consensus 41 R~slL~Gi~~G~~vG~~~fl~~~~~~~A~nwavgsF~l~s~~~we~Cr~~r 91 (118)
T PF12597_consen 41 RDSLLYGIAGGFGVGGLRFLFTSNPRKAANWAVGSFFLGSLGSWEYCRYNR 91 (118)
T ss_pred HHHHHHHHHHHHHHHhhhhcccCCCccchhhhhHHHHHHHHHHHHHHHHHH
Confidence 44455566666788888888877544 35699999999998766555443
No 74
>KOG1108 consensus Predicted heme/steroid binding protein [General function prediction only]
Probab=21.39 E-value=80 Score=29.99 Aligned_cols=27 Identities=26% Similarity=0.402 Sum_probs=17.5
Q ss_pred cCCCCCCcceeeeecCCCCCCCCCCCCC
Q 038426 23 RLTGTRTSFVSLCKSKDSESEESPSEGD 50 (245)
Q Consensus 23 r~~~~r~s~~~~c~~gds~~~~~~~~GD 50 (245)
=|.++-.+++|+|+ +++.-+.-+++|+
T Consensus 230 Ly~pg~k~frCaCV-p~~~~~e~~~~~n 256 (281)
T KOG1108|consen 230 LYSPGNKSFRCACV-PDAELDEIDAGGN 256 (281)
T ss_pred ccCCCCCCcceEec-cccCCCcCCCCCC
Confidence 34556669999996 6655455555554
No 75
>PF04148 Erv26: Transmembrane adaptor Erv26; InterPro: IPR007277 Erv26 is an integral membrane protein that is packed into COPII vesicles and cycles between the ER and Golgi compartments. It directs pro-alkaline phosphatase into endoplasmic reticulum-derived COPII transport vesicles [].
Probab=21.32 E-value=1.5e+02 Score=26.94 Aligned_cols=42 Identities=14% Similarity=0.234 Sum_probs=27.8
Q ss_pred chhHHHHHHHHHHHHHHHHhhhccCCchhHHHHHHHHHHHHHHHHHHHhcCC
Q 038426 178 KTRRNIYLAFIGLLVIGIADSFISSSDWRKVAVLGAILVPLLLQFLHEQGML 229 (245)
Q Consensus 178 ktR~nvYl~li~lL~l~Iv~~v~ss~dw~KvA~lg~IlvaL~~Q~~yEq~~~ 229 (245)
--++-||.-.+..+.+-++|.+ +| -.+++++++|++|-+++.
T Consensus 44 il~~~I~~ii~~~vlL~~~D~~----P~------~~~l~si~s~~~Y~~~L~ 85 (211)
T PF04148_consen 44 ILKRLIYFIIALHVLLLLFDGF----PF------WLTLFSIFSHLVYLRNLR 85 (211)
T ss_pred HHHHHHHHHHHHHHHHHhcCCC----CH------HHHHHHHHHHHHHHHHhC
Confidence 4456677666555555556654 22 257788999999998874
No 76
>cd03401 Band_7_prohibitin Band_7_prohibitin. A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup group includes proteins similar to prohibitin (a lipid raft-associated integral membrane protein). Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. These microdomains in addition to being stable scaffolds may also be also dynamic units with their own regulatory functions. Prohibitin is a mitochondrial inner-membrane protein which may act as a chaperone for the stabilization of mitochondrial proteins. Human prohibitin forms a heter-oligomeric complex with Bap-37 (prohibitin 2, a band 7 domain carrying homologue). This complex may protect non-assembled membrane proteins against proteolysis by the m-AAA protease. Prohibitin and Bap-37 yeast homologues have been implicated in yeast longevity and, in the maintenance of mitochondrial morphology.
Probab=21.30 E-value=2.9e+02 Score=22.76 Aligned_cols=66 Identities=12% Similarity=0.165 Sum_probs=44.4
Q ss_pred HHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH----HhhhhhHHHhHHHHHHHHHHHHHHH
Q 038426 57 LARIAMLQAQKVRLTDYLDERSAYLTQFAEEANAEFDKIGED----ALKGLDEASSRIMENIESQMQAFEE 123 (245)
Q Consensus 57 La~iamLQ~~KvRvtdfvdErS~~L~~~AeeA~aEfDkIa~d----a~k~LDeA~~~ime~ies~m~afEE 123 (245)
+-...+=.+++.-+.|.+..|.+.-.++-+..+++++..|=. .++.++ -...+.+.|+.++.+=++
T Consensus 98 v~~~lR~vi~~~~~~ei~~~R~~i~~~i~~~l~~~l~~~Gi~i~~v~i~~i~-~p~~~~~ai~~k~~a~q~ 167 (196)
T cd03401 98 INEVLKAVVAQFTAEELITQREEVSALIREALTERAKDFGIILDDVSITHLT-FSKEFTKAVEAKQVAQQE 167 (196)
T ss_pred HHHHHHHHHccCCHHHHHhhHHHHHHHHHHHHHHHHHhCCeEEEEEEEEecc-CCHHHHHHHHHHHHHHHH
Confidence 344455667888899999999999999999999888875511 111222 245667777766655444
No 77
>PRK02251 putative septation inhibitor protein; Reviewed
Probab=21.18 E-value=2.4e+02 Score=22.59 Aligned_cols=36 Identities=25% Similarity=0.339 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHhhhccC-C-----chhHHHHHHHHHHHHHH
Q 038426 185 LAFIGLLVIGIADSFISS-S-----DWRKVAVLGAILVPLLL 220 (245)
Q Consensus 185 l~li~lL~l~Iv~~v~ss-~-----dw~KvA~lg~IlvaL~~ 220 (245)
+.++||+|+.+-.-.... | .|.=...+|+|+++++.
T Consensus 41 lm~~Gl~WlvvyYl~~~~~P~~~lG~WN~~IGfg~~~~G~~m 82 (87)
T PRK02251 41 LMIIGLIWLVVYYLSNGSLPIPALGAWNLVIGFGLIMAGFGM 82 (87)
T ss_pred HHHHHHHHHHHHhhhCCCcCcccccchhHHHHHHHHHHHHHH
No 78
>TIGR03017 EpsF chain length determinant protein EpsF. Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=21.02 E-value=6.9e+02 Score=23.37 Aligned_cols=36 Identities=17% Similarity=0.104 Sum_probs=25.9
Q ss_pred CCCCCChHHHHHHHHHHHHhhhhhhhhhhHHHHHHH
Q 038426 45 SPSEGDIKKQELLARIAMLQAQKVRLTDYLDERSAY 80 (245)
Q Consensus 45 ~~~~GD~~~Qe~La~iamLQ~~KvRvtdfvdErS~~ 80 (245)
+...+|+..|++..+++.++.+...+.....+.+-.
T Consensus 248 ~~~~~~~~i~~l~~~l~~le~~l~~l~~~y~~~hP~ 283 (444)
T TIGR03017 248 PEVIANPIIQNLKTDIARAESKLAELSQRLGPNHPQ 283 (444)
T ss_pred hhhhcChHHHHHHHHHHHHHHHHHHHHHHhCCCCcH
Confidence 334578999999999999998887775544444433
No 79
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=20.90 E-value=4.5e+02 Score=22.04 Aligned_cols=72 Identities=24% Similarity=0.286 Sum_probs=42.3
Q ss_pred HHHHHHHHHhhhhhhhhhhHHHHHHHHH----HHHHHHHHHHHHHHHHHhhhhhHHHhHHHHHHHHHHHHHHHHHHHhh
Q 038426 55 ELLARIAMLQAQKVRLTDYLDERSAYLT----QFAEEANAEFDKIGEDALKGLDEASSRIMENIESQMQAFEESAEENR 129 (245)
Q Consensus 55 e~La~iamLQ~~KvRvtdfvdErS~~L~----~~AeeA~aEfDkIa~da~k~LDeA~~~ime~ies~m~afEE~~~~~R 129 (245)
+.|++++++=+| .+-++.|+-.-|. +-++=-.+|=-+.-+|-|+...++...+=++|.++|..+.+.+...|
T Consensus 6 ~~l~k~~~~gaG---~~a~~~ek~~klvDelVkkGeln~eEak~~vddl~~q~k~~~~e~e~K~~r~i~~ml~~~~~~r 81 (108)
T COG3937 6 EGLRKLALIGAG---LAAETAEKVQKLVDELVKKGELNAEEAKRFVDDLLRQAKEAQGELEEKIPRKIEEMLSDLEVAR 81 (108)
T ss_pred HHHHHHHHhhcc---HHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHhhhHHHhhhHHHHHHHhhccccc
Confidence 568888888888 4455555544332 22222233444555666666666666666667777776666665444
No 80
>COG0670 Integral membrane protein, interacts with FtsH [General function prediction only]
Probab=20.89 E-value=2.9e+02 Score=25.04 Aligned_cols=27 Identities=30% Similarity=0.615 Sum_probs=23.3
Q ss_pred cchhHHHHHHHHHHHHHHHHhhhccCC
Q 038426 177 SKTRRNIYLAFIGLLVIGIADSFISSS 203 (245)
Q Consensus 177 SktR~nvYl~li~lL~l~Iv~~v~ss~ 203 (245)
|.-|+.++.+++|++...+|+.+..+|
T Consensus 143 s~l~~~l~~aligLiiasvvn~Fl~s~ 169 (233)
T COG0670 143 SSLGSFLFMALIGLIIASLVNIFLGSS 169 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCc
Confidence 456789999999999999999988665
No 81
>PRK10452 multidrug efflux system protein MdtJ; Provisional
Probab=20.68 E-value=2.6e+02 Score=23.01 Aligned_cols=32 Identities=25% Similarity=0.420 Sum_probs=18.3
Q ss_pred HHHHHHHHhhhc--cCCchhHHHHHHHHHHHHHH
Q 038426 189 GLLVIGIADSFI--SSSDWRKVAVLGAILVPLLL 220 (245)
Q Consensus 189 ~lL~l~Iv~~v~--ss~dw~KvA~lg~IlvaL~~ 220 (245)
|.+..+++..++ .+.+|.|+.-+++|+++.+.
T Consensus 67 G~v~~~~ig~~~f~E~~s~~~~~gi~lIi~GVi~ 100 (120)
T PRK10452 67 GILFITLFSVLLFDESLSLMKIAGLTTLVAGIVL 100 (120)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 334444444433 22467777777777777654
No 82
>PF06781 UPF0233: Uncharacterised protein family (UPF0233); InterPro: IPR009619 This is a group of proteins of unknown function.
Probab=20.65 E-value=1.2e+02 Score=24.06 Aligned_cols=24 Identities=29% Similarity=0.480 Sum_probs=13.8
Q ss_pred cCCchhHHHHHHHHHHHHHHHHHH
Q 038426 201 SSSDWRKVAVLGAILVPLLLQFLH 224 (245)
Q Consensus 201 ss~dw~KvA~lg~IlvaL~~Q~~y 224 (245)
.+|-|.++..+|+.+++|+-=++|
T Consensus 28 ~sp~W~~p~m~~lmllGL~WiVvy 51 (87)
T PF06781_consen 28 PSPRWYAPLMLGLMLLGLLWIVVY 51 (87)
T ss_pred CCCccHHHHHHHHHHHHHHHHhhh
Confidence 345566666666666666555444
No 83
>TIGR03622 urea_t_UrtB_arc urea ABC transporter, permease protein UrtB. Members of this protein family are ABC transporter permease subunits restricted to the Archaea. Several lines of evidence suggest this protein is functionally analogous, as well as homologous, to the UrtB subunit of the Corynebacterium glutamicum urea transporter. All members of the operon show sequence similarity to urea transport subunits, the gene is located near the urease structural subunits in two of three species, and partial phylogenetic profiling identifies this permease subunit as closely matching the profile of urea utilization.
Probab=20.41 E-value=1.4e+02 Score=26.78 Aligned_cols=37 Identities=14% Similarity=0.134 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHhhhccC--C-chhHHHHHHHHHHHHH
Q 038426 183 IYLAFIGLLVIGIADSFISS--S-DWRKVAVLGAILVPLL 219 (245)
Q Consensus 183 vYl~li~lL~l~Iv~~v~ss--~-dw~KvA~lg~IlvaL~ 219 (245)
++..++|.+.+++++++.+. + .|+.+..+.++++.|+
T Consensus 230 ~~G~~~Gal~l~~~~~~~~~~~~~~~~~~~~~~~~i~vl~ 269 (283)
T TIGR03622 230 VLGTALAGGLLGFINAVFSNLYGTFVGLIALLIVAIIALR 269 (283)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence 99999999999999997643 3 4667666655555544
No 84
>PRK00753 psbL photosystem II reaction center L; Provisional
Probab=20.29 E-value=1.2e+02 Score=21.28 Aligned_cols=19 Identities=32% Similarity=0.637 Sum_probs=14.2
Q ss_pred hhHHHHHHHHHHHHHHHHh
Q 038426 179 TRRNIYLAFIGLLVIGIAD 197 (245)
Q Consensus 179 tR~nvYl~li~lL~l~Iv~ 197 (245)
.|--+|+||..+++++|.-
T Consensus 15 NRTSLy~GlLlifvl~vLF 33 (39)
T PRK00753 15 NRTSLYLGLLLVFVLGILF 33 (39)
T ss_pred chhhHHHHHHHHHHHHHHH
Confidence 3667999998887777653
Done!