Query 031418
Match_columns 160
No_of_seqs 110 out of 170
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 13:49:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031418.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031418hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF09340 NuA4: Histone acetylt 100.0 1.4E-34 2.9E-39 208.4 7.3 80 13-92 1-80 (80)
2 KOG3856 Uncharacterized conser 99.9 5.1E-26 1.1E-30 177.6 4.6 93 8-102 11-103 (135)
3 KOG3856 Uncharacterized conser 89.9 0.18 3.9E-06 40.2 1.6 80 22-105 32-121 (135)
4 KOG3564 GTPase-activating prot 78.8 20 0.00043 34.6 9.8 115 11-129 74-200 (604)
5 PF13864 Enkurin: Calmodulin-b 70.9 5.5 0.00012 29.1 3.3 27 18-44 71-97 (98)
6 PF14782 BBS2_C: Ciliary BBSom 61.8 17 0.00037 33.7 5.2 35 7-41 54-88 (431)
7 PF03285 Paralemmin: Paralemmi 58.0 11 0.00024 33.3 3.2 37 13-49 2-38 (278)
8 PRK00888 ftsB cell division pr 57.0 32 0.00068 25.8 5.1 40 10-49 30-71 (105)
9 PF10146 zf-C4H2: Zinc finger- 53.4 28 0.0006 29.7 4.8 34 11-44 36-69 (230)
10 PF02403 Seryl_tRNA_N: Seryl-t 52.9 39 0.00085 24.4 5.0 40 16-55 69-108 (108)
11 TIGR02894 DNA_bind_RsfA transc 52.1 39 0.00085 27.8 5.3 34 12-45 109-142 (161)
12 PTZ00464 SNF-7-like protein; P 50.9 36 0.00079 28.6 5.1 35 12-46 59-93 (211)
13 KOG3129 26S proteasome regulat 50.2 24 0.00052 30.6 3.9 29 7-35 14-42 (231)
14 PRK05431 seryl-tRNA synthetase 49.6 29 0.00063 31.6 4.6 40 16-55 68-107 (425)
15 PRK13182 racA polar chromosome 46.3 32 0.0007 28.1 4.0 30 18-47 119-151 (175)
16 TIGR00414 serS seryl-tRNA synt 45.6 37 0.00081 30.9 4.7 41 16-56 71-111 (418)
17 PF12240 Angiomotin_C: Angiomo 43.8 37 0.0008 29.0 4.1 33 14-49 60-92 (205)
18 PF09403 FadA: Adhesion protei 42.6 15 0.00032 28.9 1.4 48 11-63 56-103 (126)
19 PTZ00446 vacuolar sorting prot 40.1 50 0.0011 27.6 4.3 33 13-45 66-98 (191)
20 PF04977 DivIC: Septum formati 39.1 1E+02 0.0022 20.5 5.0 40 9-48 19-60 (80)
21 PF11461 RILP: Rab interacting 38.4 55 0.0012 22.9 3.6 35 13-47 2-36 (60)
22 PF03148 Tektin: Tektin family 37.3 75 0.0016 28.5 5.2 38 9-46 246-283 (384)
23 PF10845 DUF2576: Protein of u 37.3 54 0.0012 22.1 3.3 22 22-43 12-33 (48)
24 PF04111 APG6: Autophagy prote 37.1 83 0.0018 27.7 5.4 37 11-47 61-100 (314)
25 TIGR02976 phageshock_pspB phag 36.0 58 0.0013 23.5 3.5 28 8-35 36-63 (75)
26 PF04568 IATP: Mitochondrial A 35.7 1E+02 0.0022 23.4 5.0 28 15-42 70-97 (100)
27 PF05384 DegS: Sensor protein 35.4 97 0.0021 25.2 5.1 32 12-43 96-127 (159)
28 cd04776 HTH_GnyR Helix-Turn-He 33.2 1.2E+02 0.0025 22.8 5.0 17 19-35 85-101 (118)
29 PF12761 End3: Actin cytoskele 32.6 1.1E+02 0.0023 26.0 5.1 34 12-46 133-184 (195)
30 PF14193 DUF4315: Domain of un 32.4 1.3E+02 0.0029 22.0 5.0 42 12-59 6-47 (83)
31 PF13600 DUF4140: N-terminal d 31.7 1.1E+02 0.0023 21.9 4.4 29 13-41 69-97 (104)
32 PF06667 PspB: Phage shock pro 31.5 76 0.0016 22.9 3.5 29 8-36 36-64 (75)
33 PF02370 M: M protein repeat; 31.5 1.1E+02 0.0023 17.5 3.6 17 22-38 2-18 (21)
34 smart00338 BRLZ basic region l 31.0 1.5E+02 0.0033 19.6 4.8 30 12-41 31-60 (65)
35 PF04380 BMFP: Membrane fusoge 30.9 1.3E+02 0.0028 21.4 4.6 19 24-42 60-78 (79)
36 PRK13182 racA polar chromosome 30.8 1.3E+02 0.0028 24.6 5.2 32 7-38 78-109 (175)
37 PRK03947 prefoldin subunit alp 29.9 1.4E+02 0.003 22.5 5.0 35 12-46 4-38 (140)
38 PF15466 DUF4635: Domain of un 29.7 1.5E+02 0.0033 23.8 5.2 33 10-42 82-119 (135)
39 KOG3478 Prefoldin subunit 6, K 29.3 88 0.0019 24.8 3.8 36 12-49 17-52 (120)
40 PF06428 Sec2p: GDP/GTP exchan 29.3 1.6E+02 0.0036 22.1 5.2 35 15-49 2-36 (100)
41 PRK05771 V-type ATP synthase s 29.1 85 0.0018 29.8 4.4 30 12-41 98-127 (646)
42 PF13094 CENP-Q: CENP-Q, a CEN 28.7 1.3E+02 0.0027 23.5 4.6 29 16-44 22-57 (160)
43 PF04568 IATP: Mitochondrial A 28.7 1.2E+02 0.0026 23.0 4.3 12 26-37 88-99 (100)
44 PF08826 DMPK_coil: DMPK coile 28.1 1.5E+02 0.0032 20.6 4.4 29 11-39 29-57 (61)
45 PF00611 FCH: Fes/CIP4, and EF 27.8 1.1E+02 0.0023 20.6 3.7 48 12-63 24-75 (91)
46 PRK09458 pspB phage shock prot 27.8 96 0.0021 22.6 3.5 27 9-35 37-63 (75)
47 PF14257 DUF4349: Domain of un 27.5 1E+02 0.0023 25.6 4.3 43 13-55 148-198 (262)
48 PF06698 DUF1192: Protein of u 27.3 92 0.002 21.6 3.2 19 25-43 25-43 (59)
49 PLN02320 seryl-tRNA synthetase 27.1 94 0.002 29.6 4.3 40 16-55 132-171 (502)
50 PF06034 DUF919: Nucleopolyhed 26.6 2.3E+02 0.005 19.9 5.7 40 9-48 3-58 (62)
51 COG1382 GimC Prefoldin, chaper 26.5 1.7E+02 0.0036 23.0 4.9 30 12-41 18-47 (119)
52 cd04772 HTH_TioE_rpt1 First He 26.1 1.1E+02 0.0024 22.1 3.6 23 14-36 76-98 (99)
53 PF00170 bZIP_1: bZIP transcri 26.1 2E+02 0.0044 19.0 5.4 29 13-41 32-60 (64)
54 KOG4715 SWI/SNF-related matrix 25.9 83 0.0018 29.2 3.5 42 12-53 226-267 (410)
55 PF04156 IncA: IncA protein; 25.8 1.6E+02 0.0035 23.0 4.9 36 13-48 80-115 (191)
56 TIGR00293 prefoldin, archaeal 25.8 1.2E+02 0.0026 22.3 3.9 25 18-42 3-27 (126)
57 PRK14127 cell division protein 25.8 2E+02 0.0042 22.1 5.1 32 13-44 36-67 (109)
58 PF10393 Matrilin_ccoil: Trime 25.6 2E+02 0.0043 19.1 4.5 24 14-37 23-46 (47)
59 PRK13729 conjugal transfer pil 25.5 67 0.0014 30.6 3.0 39 5-43 74-119 (475)
60 PF09177 Syntaxin-6_N: Syntaxi 25.2 1.9E+02 0.004 20.8 4.7 29 16-44 34-62 (97)
61 PF01920 Prefoldin_2: Prefoldi 24.5 2.4E+02 0.0052 19.6 5.1 29 16-44 64-92 (106)
62 PF14703 DUF4463: Domain of un 24.4 1.5E+02 0.0031 20.2 3.9 23 14-36 6-28 (85)
63 COG2919 Septum formation initi 24.3 1.1E+02 0.0023 23.2 3.4 34 11-49 61-94 (117)
64 KOG2129 Uncharacterized conser 24.3 1.6E+02 0.0035 28.3 5.2 42 12-53 297-338 (552)
65 PF11855 DUF3375: Protein of u 24.3 1.2E+02 0.0025 28.2 4.3 30 6-35 136-165 (478)
66 PF09032 Siah-Interact_N: Siah 22.7 1.9E+02 0.0041 21.1 4.3 23 23-45 28-50 (79)
67 PF04380 BMFP: Membrane fusoge 22.6 1.2E+02 0.0026 21.5 3.2 23 13-35 56-78 (79)
68 PF02403 Seryl_tRNA_N: Seryl-t 22.5 2.5E+02 0.0054 20.1 5.0 31 10-40 70-100 (108)
69 PF07397 DUF1502: Repeat of un 22.4 1E+02 0.0022 19.5 2.4 18 112-129 1-18 (34)
70 COG3879 Uncharacterized protei 22.3 2.1E+02 0.0045 25.1 5.2 31 11-41 54-84 (247)
71 PF09932 DUF2164: Uncharacteri 22.2 1.7E+02 0.0037 21.0 3.9 24 18-41 51-74 (76)
72 PF09403 FadA: Adhesion protei 22.1 2.3E+02 0.005 22.2 5.0 27 16-42 95-121 (126)
73 PF14282 FlxA: FlxA-like prote 22.1 2E+02 0.0042 21.4 4.4 28 20-47 50-77 (106)
74 TIGR02209 ftsL_broad cell divi 22.0 2.6E+02 0.0056 19.0 4.8 36 11-46 28-64 (85)
75 COG3750 Uncharacterized protei 22.0 2.3E+02 0.005 21.2 4.6 29 12-40 12-40 (85)
76 TIGR02338 gimC_beta prefoldin, 22.0 1.9E+02 0.0041 21.3 4.3 32 15-46 4-35 (110)
77 TIGR03807 RR_fam_repeat putati 21.8 22 0.00048 21.3 -0.6 17 41-57 8-25 (27)
78 TIGR02338 gimC_beta prefoldin, 21.7 2.5E+02 0.0054 20.6 4.9 29 16-44 69-97 (110)
79 PF11285 DUF3086: Protein of u 21.6 1.7E+02 0.0037 26.2 4.6 53 13-65 3-59 (283)
80 PF11598 COMP: Cartilage oligo 21.6 2.5E+02 0.0054 18.5 4.5 31 13-48 7-37 (45)
81 PF10458 Val_tRNA-synt_C: Valy 21.1 2.5E+02 0.0054 18.9 4.5 19 23-41 6-24 (66)
82 PF07195 FliD_C: Flagellar hoo 21.1 2.5E+02 0.0055 23.2 5.3 37 11-47 190-226 (239)
83 PF13600 DUF4140: N-terminal d 20.8 2.8E+02 0.006 19.8 4.9 29 10-38 73-101 (104)
84 COG0718 Uncharacterized protei 20.7 1.1E+02 0.0025 23.4 2.9 30 15-44 6-35 (105)
85 PF13747 DUF4164: Domain of un 20.6 2.4E+02 0.0051 20.6 4.5 35 8-42 33-67 (89)
86 PRK09343 prefoldin subunit bet 20.6 2.8E+02 0.0061 21.0 5.1 36 11-46 4-39 (121)
87 cd00632 Prefoldin_beta Prefold 20.5 2.7E+02 0.0058 20.2 4.8 28 15-42 71-98 (105)
88 PF14362 DUF4407: Domain of un 20.4 2.7E+02 0.0058 23.6 5.5 50 11-60 132-182 (301)
89 KOG2685 Cystoskeletal protein 20.2 1.4E+02 0.003 28.1 3.9 41 5-45 68-108 (421)
90 smart00502 BBC B-Box C-termina 20.1 3.1E+02 0.0068 19.0 5.1 50 10-62 3-52 (127)
91 cd00890 Prefoldin Prefoldin is 20.0 3.5E+02 0.0075 19.5 5.4 27 17-43 90-116 (129)
92 COG3937 Uncharacterized conser 20.0 2E+02 0.0042 22.5 4.1 32 12-43 66-105 (108)
93 COG4942 Membrane-bound metallo 20.0 2.5E+02 0.0054 26.4 5.5 31 15-45 53-83 (420)
No 1
>PF09340 NuA4: Histone acetyltransferase subunit NuA4; InterPro: IPR015418 The NuA4 histone acetyltransferase (HAT) multisubunit complex is responsible for acetylation of histone H4 and H2A N-terminal tails in yeast []. NuA4 complexes are highly conserved in eukaryotes and play primary roles in transcription, cellular response to DNA damage, and cell cycle control [].
Probab=100.00 E-value=1.4e-34 Score=208.42 Aligned_cols=80 Identities=45% Similarity=0.803 Sum_probs=75.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCceeccccccccCCCCCCCCCCCCCCCCCCccccCCCCCch
Q 031418 13 AATLAALVSKRSRFQDELRNIENQVYELETSYLQDIGQFGNAFKGFEGFLSSGKNTSNFKRPRKLQPEDRIFSLSSVTSP 92 (160)
Q Consensus 13 ~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~~~GNIIKGFDgylkss~~s~~~kR~~~f~d~DRIFSlSS~Ts~ 92 (160)
+++|++||++|++|+++|.+||+|||++||+||++++.+||||||||||+++++.+++.+|++.|+++|||||+||+|||
T Consensus 1 k~~L~~l~~~k~~Le~~L~~lE~qIy~~Et~YL~~~~~~GNiikGfd~y~k~~~~~~~~~~~~~~~~~dRiFS~SS~t~~ 80 (80)
T PF09340_consen 1 KKELKELLQKKKKLEKDLAALEKQIYDKETSYLEDTSPYGNIIKGFDGYLKSSSGAANSRRKRGFTDDDRIFSLSSVTSP 80 (80)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCcCCCCeeChhhhhccccccccccccCCCCccccCcccccccCC
Confidence 47899999999999999999999999999999998888999999999999997766778899999999999999999997
No 2
>KOG3856 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.92 E-value=5.1e-26 Score=177.60 Aligned_cols=93 Identities=37% Similarity=0.571 Sum_probs=84.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCceeccccccccCCCCCCCCCCCCCCCCCCccccCC
Q 031418 8 GNSNPAATLAALVSKRSRFQDELRNIENQVYELETSYLQDIGQFGNAFKGFEGFLSSGKNTSNFKRPRKLQPEDRIFSLS 87 (160)
Q Consensus 8 ~~~~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~~~GNIIKGFDgylkss~~s~~~kR~~~f~d~DRIFSlS 87 (160)
+-.+++++|.+||++|++|++.|+.||+|||++|++||++|+.+||||+||+.|+++ ++.+.+|.++|.+.+|+||.|
T Consensus 11 ~ye~~kaEL~elikkrqe~eetl~nLe~qIY~~EgsYle~ts~~gniirG~e~~lks--ns~n~rr~r~f~eaerlfs~s 88 (135)
T KOG3856|consen 11 SYEDTKAELAELIKKRQELEETLANLERQIYAFEGSYLEDTSNNGNIIRGWERYLKS--NSKNDRRNRKFKEAERLFSKS 88 (135)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccCCCchhhhhhhhccc--cccchhhhccccHHHHHhhhc
Confidence 445789999999999999999999999999999999999999999999999999998 344678999999999999999
Q ss_pred CCCchhhhhhccccc
Q 031418 88 SVTSPAAEELGVRRD 102 (160)
Q Consensus 88 S~Ts~~~~E~~~~~d 102 (160)
|+|++++......-+
T Consensus 89 s~ss~~~~sp~~al~ 103 (135)
T KOG3856|consen 89 SDSSFANNSPAFALS 103 (135)
T ss_pred ccccccccCchhccc
Confidence 999999887555444
No 3
>KOG3856 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.90 E-value=0.18 Score=40.25 Aligned_cols=80 Identities=15% Similarity=0.133 Sum_probs=56.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH----------HhhhhhcCCCCceeccccccccCCCCCCCCCCCCCCCCCCccccCCCCCc
Q 031418 22 KRSRFQDELRNIENQVYELE----------TSYLQDIGQFGNAFKGFEGFLSSGKNTSNFKRPRKLQPEDRIFSLSSVTS 91 (160)
Q Consensus 22 kRk~Le~~L~~LE~qIYd~E----------tsYLeeT~~~GNIIKGFDgylkss~~s~~~kR~~~f~d~DRIFSlSS~Ts 91 (160)
.=..|+.+|=.+|-.-+..= .-||......+|++++|+-+-+..+.++ -..|...+++|+++|.|+
T Consensus 32 tl~nLe~qIY~~EgsYle~ts~~gniirG~e~~lksns~n~rr~r~f~eaerlfs~ss----~ss~~~~sp~~al~s~t~ 107 (135)
T KOG3856|consen 32 TLANLERQIYAFEGSYLEDTSNNGNIIRGWERYLKSNSKNDRRNRKFKEAERLFSKSS----DSSFANNSPAFALSSDTY 107 (135)
T ss_pred HHHHHHHHHHHHhhhhhhcccCCCchhhhhhhhccccccchhhhccccHHHHHhhhcc----cccccccCchhcccchhH
Confidence 33468899988887744332 3478776678999999998776522111 245678899999999999
Q ss_pred hhhhhhcccccCCC
Q 031418 92 PAAEELGVRRDDGR 105 (160)
Q Consensus 92 ~~~~E~~~~~dd~~ 105 (160)
..-..-....|+..
T Consensus 108 t~~r~~~sq~~n~s 121 (135)
T KOG3856|consen 108 TKQRHGQSQNDNES 121 (135)
T ss_pred HHHhccccccCCCC
Confidence 88777766655333
No 4
>KOG3564 consensus GTPase-activating protein [General function prediction only]
Probab=78.85 E-value=20 Score=34.65 Aligned_cols=115 Identities=17% Similarity=0.231 Sum_probs=68.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCceec-cccccc-------cCCCCCCCCCCCCCCCCCCc
Q 031418 11 NPAATLAALVSKRSRFQDELRNIENQVYELETSYLQDIGQFGNAFK-GFEGFL-------SSGKNTSNFKRPRKLQPEDR 82 (160)
Q Consensus 11 ~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~~~GNIIK-GFDgyl-------kss~~s~~~kR~~~f~d~DR 82 (160)
.+++++..+|+.|+.++-++..+|.||-..---...+.. |||-+ +=+.|. +.+++.+..++...+++.+=
T Consensus 74 ha~~~vda~ik~rr~ae~d~~~~E~~i~~i~d~l~~~~~--~s~~~~d~~~f~~~~~~~~~~~S~na~~k~l~~~~~~gs 151 (604)
T KOG3564|consen 74 HARNQVDAEIKRRRRAEADCEKLETQIQLIKDMLKCDIS--GSIQLSDEQKFALAFLNRGQPSSSNAGNKRLSEIDESGS 151 (604)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhcccc--cccccchhhhhhhhccccCCccccccCCccccccCCCcc
Confidence 357889999999999999999999999988777777775 66644 333333 22222233455566777777
Q ss_pred cccCCCCC----chhhhhhcccccCCCcccCCCCCcCCCCCCCCCCCCCCC
Q 031418 83 IFSLSSVT----SPAAEELGVRRDDGRFDYGAGRSKGGNLPSNGQGKPKRG 129 (160)
Q Consensus 83 IFSlSS~T----s~~~~E~~~~~dd~~~~~~~g~~~~~~~~~~~~g~~~~~ 129 (160)
|.|-=|.+ +.-+.-...++.--+ .+++|--......-++|-|.++
T Consensus 152 ~lSdis~d~tD~fldv~~s~~~re~r~--s~~krrs~S~~~~t~p~tP~k~ 200 (604)
T KOG3564|consen 152 ILSDISFDKTDEFLDVDSSLVKREKRK--SGEKRRSPSRRLVTSPGTPTKR 200 (604)
T ss_pred ccccCcccccchhhhHHhhhcchhccc--ccCcCCCccceeccCCCCCccc
Confidence 76665543 122222222332111 2454444444444556656554
No 5
>PF13864 Enkurin: Calmodulin-binding
Probab=70.90 E-value=5.5 Score=29.07 Aligned_cols=27 Identities=15% Similarity=0.362 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 031418 18 ALVSKRSRFQDELRNIENQVYELETSY 44 (160)
Q Consensus 18 ~Ll~kRk~Le~~L~~LE~qIYd~EtsY 44 (160)
....+|..||.+|..||+.|--+|..+
T Consensus 71 ~~~~rK~~lE~~L~qlE~dI~~lsr~~ 97 (98)
T PF13864_consen 71 RKKRRKEELEKELKQLEKDIKKLSRPK 97 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccCC
Confidence 356789999999999999998887643
No 6
>PF14782 BBS2_C: Ciliary BBSome complex subunit 2, C-terminal
Probab=61.78 E-value=17 Score=33.73 Aligned_cols=35 Identities=26% Similarity=0.277 Sum_probs=31.1
Q ss_pred cCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 7 RGNSNPAATLAALVSKRSRFQDELRNIENQVYELE 41 (160)
Q Consensus 7 ~~~~~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~E 41 (160)
..+......|++|++||++|..+|..+|.++-..+
T Consensus 54 ~~~~~~~~~lreL~qkKQ~Ll~EL~nyEe~~~~~~ 88 (431)
T PF14782_consen 54 VDASDEQEALRELSQKKQNLLLELRNYEENAKREK 88 (431)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 34567788999999999999999999999999777
No 7
>PF03285 Paralemmin: Paralemmin; InterPro: IPR004965 Paralemmin was identified in the chicken lens as a protein with a molecular weight of 65 kDa (isoform 1) and a splice variant of 60 kDa (isoform 2). Isoform 2 is predominant during infancy and levels of isoform 1 increase with age. Paralemmin is localised to the plasma membrane of fibre cells, and was not detected in the annular pad cells. Its localisation to the short side of the fibre cell and the sites of fibre cell interlocking suggests that paralemmin may play a role in the development of such interdigitating processes []. Palmitoylation is important for localising these proteins to the filopodia of dendritic cells where they have been implicated in the regulation of membrane dynamics and process outgrowth. ; GO: 0008360 regulation of cell shape, 0016020 membrane
Probab=57.98 E-value=11 Score=33.32 Aligned_cols=37 Identities=14% Similarity=0.161 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcC
Q 031418 13 AATLAALVSKRSRFQDELRNIENQVYELETSYLQDIG 49 (160)
Q Consensus 13 ~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~ 49 (160)
+++|.+=.+|=+.||+.|..||++|-.+|+.=+.-+.
T Consensus 2 rrQ~qEDEqKtR~LEesI~RLEkEIe~LE~~es~iSt 38 (278)
T PF03285_consen 2 RRQMQEDEQKTRSLEESIHRLEKEIEALENGESQIST 38 (278)
T ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHhccCCccccc
Confidence 5677787888889999999999999999997666443
No 8
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=56.99 E-value=32 Score=25.80 Aligned_cols=40 Identities=8% Similarity=0.120 Sum_probs=30.2
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hhhhhcC
Q 031418 10 SNPAATLAALVSKRSRFQDELRNIENQVYELET--SYLQDIG 49 (160)
Q Consensus 10 ~~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~Et--sYLeeT~ 49 (160)
..+.+++.++.+.-.+|+.+-+.|+.+|..+.. .|+++..
T Consensus 30 ~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~~dyiEe~A 71 (105)
T PRK00888 30 WRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGGQEAIEERA 71 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHH
Confidence 446667777777777788888888888888866 6888764
No 9
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=53.41 E-value=28 Score=29.71 Aligned_cols=34 Identities=24% Similarity=0.366 Sum_probs=30.2
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 031418 11 NPAATLAALVSKRSRFQDELRNIENQVYELETSY 44 (160)
Q Consensus 11 ~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsY 44 (160)
+..+++..|+.-|..+.++|..|.+.|..+|..-
T Consensus 36 e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iI 69 (230)
T PF10146_consen 36 EYRKEMEELLQERMAHVEELRQINQDINTLENII 69 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678888999999999999999999999998876
No 10
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=52.85 E-value=39 Score=24.39 Aligned_cols=40 Identities=20% Similarity=0.260 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCcee
Q 031418 16 LAALVSKRSRFQDELRNIENQVYELETSYLQDIGQFGNAF 55 (160)
Q Consensus 16 L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~~~GNII 55 (160)
..+|++.-+.|.++|..+|.++-..|...-.-....+||+
T Consensus 69 ~~~l~~e~~~lk~~i~~le~~~~~~e~~l~~~l~~iPNip 108 (108)
T PF02403_consen 69 AEELKAEVKELKEEIKELEEQLKELEEELNELLLSIPNIP 108 (108)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTS----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCC
Confidence 3456666677888888888888888887777665677764
No 11
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=52.08 E-value=39 Score=27.84 Aligned_cols=34 Identities=15% Similarity=0.320 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 031418 12 PAATLAALVSKRSRFQDELRNIENQVYELETSYL 45 (160)
Q Consensus 12 ~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYL 45 (160)
+..++.+|.++=+.|+.++..|++++...|..|=
T Consensus 109 l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~eDY~ 142 (161)
T TIGR02894 109 LKNQNESLQKRNEELEKELEKLRQRLSTIEEDYQ 142 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4466777777778888888888888877777774
No 12
>PTZ00464 SNF-7-like protein; Provisional
Probab=50.85 E-value=36 Score=28.60 Aligned_cols=35 Identities=9% Similarity=0.230 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 031418 12 PAATLAALVSKRSRFQDELRNIENQVYELETSYLQ 46 (160)
Q Consensus 12 ~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLe 46 (160)
.+.....+|++|+.++.+|.+|..+++.+|.....
T Consensus 59 ~K~~Al~~LK~KK~~E~ql~~l~~q~~nleq~~~~ 93 (211)
T PTZ00464 59 HKQRAMQLLQQKRMYQNQQDMMMQQQFNMDQLQFT 93 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46666678899998999888888888888887765
No 13
>KOG3129 consensus 26S proteasome regulatory complex, subunit PSMD9 [Posttranslational modification, protein turnover, chaperones]
Probab=50.17 E-value=24 Score=30.62 Aligned_cols=29 Identities=14% Similarity=0.375 Sum_probs=23.9
Q ss_pred cCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 7 RGNSNPAATLAALVSKRSRFQDELRNIEN 35 (160)
Q Consensus 7 ~~~~~~~~~L~~Ll~kRk~Le~~L~~LE~ 35 (160)
....+...++++|+.+|.+||.+|..+..
T Consensus 14 ~ag~~~~~~~~eLm~~K~eiE~qin~~~~ 42 (231)
T KOG3129|consen 14 MAGANTKSELKELMDKKTEIETQINELVE 42 (231)
T ss_pred hccchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567899999999999998888877764
No 14
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=49.65 E-value=29 Score=31.60 Aligned_cols=40 Identities=20% Similarity=0.301 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCcee
Q 031418 16 LAALVSKRSRFQDELRNIENQVYELETSYLQDIGQFGNAF 55 (160)
Q Consensus 16 L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~~~GNII 55 (160)
..+|+++-++|.++|..||++++..|..+.+.....+||+
T Consensus 68 ~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~iPN~~ 107 (425)
T PRK05431 68 AEALIAEVKELKEEIKALEAELDELEAELEELLLRIPNLP 107 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC
Confidence 3456666678888899999999998888887665566765
No 15
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=46.30 E-value=32 Score=28.13 Aligned_cols=30 Identities=23% Similarity=0.537 Sum_probs=20.0
Q ss_pred HHHHHHHHHHH---HHHHHHHHHHHHHHhhhhh
Q 031418 18 ALVSKRSRFQD---ELRNIENQVYELETSYLQD 47 (160)
Q Consensus 18 ~Ll~kRk~Le~---~L~~LE~qIYd~EtsYLee 47 (160)
+||+.|+++|+ .|.+||+.|...|-.|...
T Consensus 119 qll~hr~e~ee~~~~l~~le~~~~~~e~~~~~~ 151 (175)
T PRK13182 119 QLLQHRREMEEMLERLQKLEARLKKLEPIYITP 151 (175)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHhhccCC
Confidence 36666776664 4566777787777766654
No 16
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=45.58 E-value=37 Score=30.86 Aligned_cols=41 Identities=12% Similarity=0.215 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCceec
Q 031418 16 LAALVSKRSRFQDELRNIENQVYELETSYLQDIGQFGNAFK 56 (160)
Q Consensus 16 L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~~~GNIIK 56 (160)
..+|+++=++|.++|..||++++..|..+.+......||+.
T Consensus 71 ~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~lPN~~~ 111 (418)
T TIGR00414 71 IEEIKKELKELKEELTELSAALKALEAELQDKLLSIPNIPH 111 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCC
Confidence 45677777788899999999999999988887666677753
No 17
>PF12240 Angiomotin_C: Angiomotin C terminal; InterPro: IPR024646 This domain represents the C-terminal region of angiomotin. Angiomotin regulates the action of angiogenesis-inhibitor angiostatin []. The C-terminal region of angiomotin appears to be involved in directing the protein chemotactically [].
Probab=43.78 E-value=37 Score=29.03 Aligned_cols=33 Identities=18% Similarity=0.393 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcC
Q 031418 14 ATLAALVSKRSRFQDELRNIENQVYELETSYLQDIG 49 (160)
Q Consensus 14 ~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~ 49 (160)
..|+++| ++=++.|-.||..+-..|..||+++.
T Consensus 60 ~~L~~~L---rEkEErILaLEad~~kWEqkYLEEs~ 92 (205)
T PF12240_consen 60 SNLKELL---REKEERILALEADMTKWEQKYLEESA 92 (205)
T ss_pred HHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444 45578999999999999999999985
No 18
>PF09403 FadA: Adhesion protein FadA; InterPro: IPR018543 FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices. ; PDB: 3ETZ_B 3ETY_A 2GL2_B 3ETX_C 3ETW_A.
Probab=42.59 E-value=15 Score=28.87 Aligned_cols=48 Identities=15% Similarity=0.367 Sum_probs=33.1
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCceecccccccc
Q 031418 11 NPAATLAALVSKRSRFQDELRNIENQVYELETSYLQDIGQFGNAFKGFEGFLS 63 (160)
Q Consensus 11 ~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~~~GNIIKGFDgylk 63 (160)
++.+.|.++.+.+..+++.+..|+.. .++.|+.+. |+++++=|+.|.+
T Consensus 56 ~a~~~L~~~~~~~~~i~e~~~kl~~~---~~~r~yk~e--Yk~llk~y~~~~~ 103 (126)
T PF09403_consen 56 AAEAELAELKELYAEIEEKIEKLKQD---SKVRWYKDE--YKELLKKYKDLLN 103 (126)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH---GGGSTTHHH--HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHh---cchhHHHHH--HHHHHHHHHHHHH
Confidence 45566677777777777777666654 667777654 6788888877765
No 19
>PTZ00446 vacuolar sorting protein SNF7-like; Provisional
Probab=40.11 E-value=50 Score=27.59 Aligned_cols=33 Identities=21% Similarity=0.412 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 031418 13 AATLAALVSKRSRFQDELRNIENQVYELETSYL 45 (160)
Q Consensus 13 ~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYL 45 (160)
+.....+|++|+.++.+|.++..|+..+|+.-+
T Consensus 66 k~~Al~~LkrKK~~E~ql~q~~~ql~nLEq~~~ 98 (191)
T PTZ00446 66 MSNAKILLKRKKLYEQEIENILNNRLTLEDNMI 98 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444556777887788777776666666665444
No 20
>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=39.06 E-value=1e+02 Score=20.47 Aligned_cols=40 Identities=13% Similarity=0.320 Sum_probs=27.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHhhhhhc
Q 031418 9 NSNPAATLAALVSKRSRFQDELRNIENQVYEL--ETSYLQDI 48 (160)
Q Consensus 9 ~~~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~--EtsYLeeT 48 (160)
...+++++.+|.++-.++..+...|+.+|-.+ --.|++.-
T Consensus 19 ~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~~~~~ie~~ 60 (80)
T PF04977_consen 19 YYQLNQEIAELQKEIEELKKENEELKEEIERLKNDPDYIEKV 60 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHH
Confidence 34566677777777777777777777777776 45666644
No 21
>PF11461 RILP: Rab interacting lysosomal protein; InterPro: IPR021563 RILP contains a domain which contains two coiled-coil regions and is found mainly in the cytosol. RILP is recruited onto late endosomal and lysosomal membranes by Rab7 and acts as a downstream effector of Rab7. This recruitment process is important for phagosome maturation and fusion with late endosomes and lysosomes. ; PDB: 1YHN_B.
Probab=38.38 E-value=55 Score=22.88 Aligned_cols=35 Identities=14% Similarity=0.282 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 031418 13 AATLAALVSKRSRFQDELRNIENQVYELETSYLQD 47 (160)
Q Consensus 13 ~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLee 47 (160)
.++|++.|.-|.+|..+|-.||+++..+-..-+.+
T Consensus 2 l~ELr~VL~ERNeLK~~v~~leEEL~~yk~~~~~~ 36 (60)
T PF11461_consen 2 LQELREVLQERNELKARVFLLEEELAYYKSELLPD 36 (60)
T ss_dssp -TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSST
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCc
Confidence 35899999999999999999999876655544433
No 22
>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []. The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule
Probab=37.29 E-value=75 Score=28.54 Aligned_cols=38 Identities=11% Similarity=0.178 Sum_probs=32.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 031418 9 NSNPAATLAALVSKRSRFQDELRNIENQVYELETSYLQ 46 (160)
Q Consensus 9 ~~~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLe 46 (160)
...+++.+.++..-|.+|+.+|..++++|.+.|..+-.
T Consensus 246 n~al~~Ri~et~~ak~~Le~ql~~~~~ei~~~e~~i~~ 283 (384)
T PF03148_consen 246 NAALRKRIHETQEAKNELEWQLKKTLQEIAEMEKNIED 283 (384)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 34577888999999999999999999999999887644
No 23
>PF10845 DUF2576: Protein of unknown function (DUF2576); InterPro: IPR022556 The function of this viral family of proteins is unknown. The entry contains Orf5 from Autographa californica nuclear polyhedrosis virus (AcMNPV).
Probab=37.26 E-value=54 Score=22.13 Aligned_cols=22 Identities=32% Similarity=0.466 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 031418 22 KRSRFQDELRNIENQVYELETS 43 (160)
Q Consensus 22 kRk~Le~~L~~LE~qIYd~Ets 43 (160)
.|++|..+|..|-..+++++|.
T Consensus 12 dreqlrrelnsLR~~vhelctR 33 (48)
T PF10845_consen 12 DREQLRRELNSLRRSVHELCTR 33 (48)
T ss_pred CHHHHHHHHHHHHHHHHHHHHh
Confidence 4788999999999999999985
No 24
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=37.14 E-value=83 Score=27.67 Aligned_cols=37 Identities=27% Similarity=0.480 Sum_probs=25.8
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHhhhhh
Q 031418 11 NPAATLAALVSKRSRFQDELRNIENQVYEL---ETSYLQD 47 (160)
Q Consensus 11 ~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~---EtsYLee 47 (160)
.+.++|.+|-+.+.+|+.+|..||.++..+ |..|+.+
T Consensus 61 ~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~ 100 (314)
T PF04111_consen 61 ELLQELEELEKEREELDQELEELEEELEELDEEEEEYWRE 100 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456777778888888888888887776554 4455544
No 25
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=35.97 E-value=58 Score=23.45 Aligned_cols=28 Identities=21% Similarity=0.388 Sum_probs=17.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 8 GNSNPAATLAALVSKRSRFQDELRNIEN 35 (160)
Q Consensus 8 ~~~~~~~~L~~Ll~kRk~Le~~L~~LE~ 35 (160)
.+.+-.+.|.+|.++=++|++.+..||.
T Consensus 36 ls~~d~~~L~~L~~~a~rm~eRI~tLE~ 63 (75)
T TIGR02976 36 LSTDDQALLQELYAKADRLEERIDTLER 63 (75)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566676666666666666666664
No 26
>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=35.68 E-value=1e+02 Score=23.38 Aligned_cols=28 Identities=18% Similarity=0.359 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 15 TLAALVSKRSRFQDELRNIENQVYELET 42 (160)
Q Consensus 15 ~L~~Ll~kRk~Le~~L~~LE~qIYd~Et 42 (160)
+..+|.+-|++|++++...+++|-++|-
T Consensus 70 EkEqL~~Lk~kl~~e~~~~~k~i~~le~ 97 (100)
T PF04568_consen 70 EKEQLKKLKEKLKEEIEHHRKEIDELEK 97 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445566677777766667777766663
No 27
>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins. The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction
Probab=35.41 E-value=97 Score=25.17 Aligned_cols=32 Identities=22% Similarity=0.306 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031418 12 PAATLAALVSKRSRFQDELRNIENQVYELETS 43 (160)
Q Consensus 12 ~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~Ets 43 (160)
++.+-..|..+|..|+..|..|+.-|-.-|.-
T Consensus 96 ~re~E~qLr~rRD~LErrl~~l~~tierAE~l 127 (159)
T PF05384_consen 96 LREREKQLRERRDELERRLRNLEETIERAENL 127 (159)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677889999999999999999999988864
No 28
>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=33.21 E-value=1.2e+02 Score=22.76 Aligned_cols=17 Identities=18% Similarity=0.536 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHHHHH
Q 031418 19 LVSKRSRFQDELRNIEN 35 (160)
Q Consensus 19 Ll~kRk~Le~~L~~LE~ 35 (160)
+.++...|+.+++.|+.
T Consensus 85 l~~~~~~l~~~~~~l~~ 101 (118)
T cd04776 85 IEKRRAELEQQRRDIDA 101 (118)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33334444444443333
No 29
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=32.60 E-value=1.1e+02 Score=25.96 Aligned_cols=34 Identities=29% Similarity=0.445 Sum_probs=25.2
Q ss_pred HHHHHHHHHH-HHHHH-----------------HHHHHHHHHHHHHHHHhhhh
Q 031418 12 PAATLAALVS-KRSRF-----------------QDELRNIENQVYELETSYLQ 46 (160)
Q Consensus 12 ~~~~L~~Ll~-kRk~L-----------------e~~L~~LE~qIYd~EtsYLe 46 (160)
++.+|.+||. |+++| .++|..||+||--+|. ||.
T Consensus 133 vk~e~EqLL~YK~~ql~~~~~~~~~~~~~l~~v~~Dl~~ie~QV~~Le~-~L~ 184 (195)
T PF12761_consen 133 VKREFEQLLDYKERQLRELEEGRSKSGKNLKSVREDLDTIEEQVDGLES-HLS 184 (195)
T ss_pred HHHHHHHHHHHHHHHHHhhhccCCCCCCCHHHHHHHHHHHHHHHHHHHH-HHH
Confidence 5788899998 44444 4678899999988884 554
No 30
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=32.44 E-value=1.3e+02 Score=22.00 Aligned_cols=42 Identities=19% Similarity=0.227 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCceecccc
Q 031418 12 PAATLAALVSKRSRFQDELRNIENQVYELETSYLQDIGQFGNAFKGFE 59 (160)
Q Consensus 12 ~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~~~GNIIKGFD 59 (160)
+.+++.-.-.|+.+++..|..||.|+-..|-. .+-.||+++.
T Consensus 6 i~~eieK~k~Kiae~Q~rlK~Le~qk~E~EN~------EIv~~VR~~~ 47 (83)
T PF14193_consen 6 IRAEIEKTKEKIAELQARLKELEAQKTEAENL------EIVQMVRSMK 47 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHcC
Confidence 44566666677777788888888887776643 2335566653
No 31
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=31.66 E-value=1.1e+02 Score=21.92 Aligned_cols=29 Identities=24% Similarity=0.441 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 13 AATLAALVSKRSRFQDELRNIENQVYELE 41 (160)
Q Consensus 13 ~~~L~~Ll~kRk~Le~~L~~LE~qIYd~E 41 (160)
...+.+|-++.+.|+.++..|+.++...+
T Consensus 69 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~ 97 (104)
T PF13600_consen 69 SPELKELEEELEALEDELAALQDEIQALE 97 (104)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566666666666666666665554443
No 32
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=31.53 E-value=76 Score=22.92 Aligned_cols=29 Identities=14% Similarity=0.279 Sum_probs=21.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 8 GNSNPAATLAALVSKRSRFQDELRNIENQ 36 (160)
Q Consensus 8 ~~~~~~~~L~~Ll~kRk~Le~~L~~LE~q 36 (160)
-+.+-.+.|.+|.++=++|++.+.+||.=
T Consensus 36 Ls~~d~~~L~~L~~~a~rm~eRI~tLE~I 64 (75)
T PF06667_consen 36 LSEEDEQRLQELYEQAERMEERIETLERI 64 (75)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455677888888888888888888753
No 33
>PF02370 M: M protein repeat; InterPro: IPR003345 This short repeat is found in multiple copies in bacterial M proteins. The M proteins bind to IgA and are closely associated with virulence. The M protein has been postulated to be a major group A streptococcal (GAS) virulence factor because of its contribution to the bacterial resistance to opsonophagocytosis [].; PDB: 2KK9_A.
Probab=31.52 E-value=1.1e+02 Score=17.52 Aligned_cols=17 Identities=6% Similarity=0.292 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHH
Q 031418 22 KRSRFQDELRNIENQVY 38 (160)
Q Consensus 22 kRk~Le~~L~~LE~qIY 38 (160)
.+++||.++.+||.+--
T Consensus 2 akk~lEa~~qkLe~e~q 18 (21)
T PF02370_consen 2 AKKQLEADHQKLEAEKQ 18 (21)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHh
Confidence 46678888888887643
No 34
>smart00338 BRLZ basic region leucin zipper.
Probab=31.05 E-value=1.5e+02 Score=19.63 Aligned_cols=30 Identities=13% Similarity=0.337 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 12 PAATLAALVSKRSRFQDELRNIENQVYELE 41 (160)
Q Consensus 12 ~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~E 41 (160)
+..++..|...-..|..++..|+.+|..+.
T Consensus 31 Le~~~~~L~~en~~L~~~~~~l~~e~~~lk 60 (65)
T smart00338 31 LERKVEQLEAENERLKKEIERLRRELEKLK 60 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555555555555443
No 35
>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=30.90 E-value=1.3e+02 Score=21.38 Aligned_cols=19 Identities=26% Similarity=0.501 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 031418 24 SRFQDELRNIENQVYELET 42 (160)
Q Consensus 24 k~Le~~L~~LE~qIYd~Et 42 (160)
.++...|..||.+|..+|.
T Consensus 60 ~~~r~kl~~LEarl~~LE~ 78 (79)
T PF04380_consen 60 ARTREKLEALEARLAALEA 78 (79)
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 3456677888888887774
No 36
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=30.81 E-value=1.3e+02 Score=24.58 Aligned_cols=32 Identities=13% Similarity=0.157 Sum_probs=22.9
Q ss_pred cCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 7 RGNSNPAATLAALVSKRSRFQDELRNIENQVY 38 (160)
Q Consensus 7 ~~~~~~~~~L~~Ll~kRk~Le~~L~~LE~qIY 38 (160)
.+.+.+...+.-|.++++.|+.+|+.||.++-
T Consensus 78 ~G~~t~~~R~~lLe~~~~~l~~ri~eLe~~l~ 109 (175)
T PRK13182 78 IVQNISSVDFEQLEAQLNTITRRLDELERQLQ 109 (175)
T ss_pred cCCccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666677777788888888888877654
No 37
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=29.89 E-value=1.4e+02 Score=22.54 Aligned_cols=35 Identities=20% Similarity=0.328 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 031418 12 PAATLAALVSKRSRFQDELRNIENQVYELETSYLQ 46 (160)
Q Consensus 12 ~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLe 46 (160)
...+|..|+...++|..++..|..+|-.++..--+
T Consensus 4 ~~~~l~~l~~~~~~l~~~~~~l~~~~~~l~~~~~e 38 (140)
T PRK03947 4 SEQELEELAAQLQALQAQIEALQQQLEELQASINE 38 (140)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45678888888888888888888888877766544
No 38
>PF15466 DUF4635: Domain of unknown function (DUF4635)
Probab=29.70 E-value=1.5e+02 Score=23.80 Aligned_cols=33 Identities=21% Similarity=0.462 Sum_probs=23.6
Q ss_pred CCHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHH
Q 031418 10 SNPAATLAALVSK-----RSRFQDELRNIENQVYELET 42 (160)
Q Consensus 10 ~~~~~~L~~Ll~k-----Rk~Le~~L~~LE~qIYd~Et 42 (160)
..+.+.|+..++. -++|++++..||+.+-|+|-
T Consensus 82 eEPik~~r~WLkenLhvflEkLE~EvreLEQlV~DLE~ 119 (135)
T PF15466_consen 82 EEPIKAIRNWLKENLHVFLEKLEKEVRELEQLVRDLEE 119 (135)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555543 36789999999999999884
No 39
>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]
Probab=29.31 E-value=88 Score=24.75 Aligned_cols=36 Identities=22% Similarity=0.334 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcC
Q 031418 12 PAATLAALVSKRSRFQDELRNIENQVYELETSYLQDIG 49 (160)
Q Consensus 12 ~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~ 49 (160)
+.++|...+.-|++|+.+|. |..|-..|-..|++.+
T Consensus 17 LQk~l~k~~~~rqkle~qL~--Enk~V~~Eldlle~d~ 52 (120)
T KOG3478|consen 17 LQKELEKYVESRQKLETQLQ--ENKIVLEELDLLEEDS 52 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHh--hhHHHHHHHHHhcccc
Confidence 34455555555555555553 5667777778887654
No 40
>PF06428 Sec2p: GDP/GTP exchange factor Sec2p; InterPro: IPR009449 In Saccharomyces cerevisiae, Sec2p is a GDP/GTP exchange factor for Sec4p, which is required for vesicular transport at the post-Golgi stage of yeast secretion []. It catalyzes the dissociation of GDP from SEC4 and also potently promoting binding of GTP. Activation of SEC4 by SEC2 is needed for the directed transport of vesicles to sites of exocytosis. Binds the Rab GTPase YPT32, but does not have exhange activity on YPT32 [, , ].; PDB: 2EQB_C 2E7S_K 2OCY_A.
Probab=29.28 E-value=1.6e+02 Score=22.11 Aligned_cols=35 Identities=23% Similarity=0.342 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcC
Q 031418 15 TLAALVSKRSRFQDELRNIENQVYELETSYLQDIG 49 (160)
Q Consensus 15 ~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~ 49 (160)
+|..-...|..++.....||.+|-++-++.|++.+
T Consensus 2 ~l~~e~~~r~~ae~~~~~ie~ElEeLTasLFeEAN 36 (100)
T PF06428_consen 2 ELEEERERREEAEQEKEQIESELEELTASLFEEAN 36 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46667778888999999999999999998888764
No 41
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=29.10 E-value=85 Score=29.80 Aligned_cols=30 Identities=20% Similarity=0.402 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 12 PAATLAALVSKRSRFQDELRNIENQVYELE 41 (160)
Q Consensus 12 ~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~E 41 (160)
+.+++.++.+++++|++++..++++|..+|
T Consensus 98 ~~~~i~~l~~~~~~L~~~~~~l~~~~~~l~ 127 (646)
T PRK05771 98 IEKEIKELEEEISELENEIKELEQEIERLE 127 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 345566667777777777777777766555
No 42
>PF13094 CENP-Q: CENP-Q, a CENPA-CAD centromere complex subunit
Probab=28.74 E-value=1.3e+02 Score=23.46 Aligned_cols=29 Identities=10% Similarity=0.316 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHH-------HHHHHHHHHHHhh
Q 031418 16 LAALVSKRSRFQDELR-------NIENQVYELETSY 44 (160)
Q Consensus 16 L~~Ll~kRk~Le~~L~-------~LE~qIYd~EtsY 44 (160)
...++..++.|+.+|. .|+.+|...|..|
T Consensus 22 ~e~ll~~~~~LE~qL~~~~~~l~lLq~e~~~~e~~l 57 (160)
T PF13094_consen 22 YEQLLDRKRALERQLAANLHQLELLQEEIEKEEAAL 57 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666666666655 4555544444333
No 43
>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=28.67 E-value=1.2e+02 Score=23.03 Aligned_cols=12 Identities=17% Similarity=0.567 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHH
Q 031418 26 FQDELRNIENQV 37 (160)
Q Consensus 26 Le~~L~~LE~qI 37 (160)
.+++|+.||++|
T Consensus 88 ~~k~i~~le~~I 99 (100)
T PF04568_consen 88 HRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHhc
Confidence 677777777776
No 44
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=28.06 E-value=1.5e+02 Score=20.62 Aligned_cols=29 Identities=10% Similarity=0.252 Sum_probs=21.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 11 NPAATLAALVSKRSRFQDELRNIENQVYE 39 (160)
Q Consensus 11 ~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd 39 (160)
++...|++.-.+.+.|..+|..|+++|-.
T Consensus 29 ~~e~kLqeaE~rn~eL~~ei~~L~~e~ee 57 (61)
T PF08826_consen 29 AFESKLQEAEKRNRELEQEIERLKKEMEE 57 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567777777777888888888777754
No 45
>PF00611 FCH: Fes/CIP4, and EFC/F-BAR homology domain; InterPro: IPR001060 The FCH domain is a short conserved region of around 60 amino acids first described as a region of homology between FER and CIP4 proteins []. Many proteins containing an FCH domain are involved in the regulation of cytoskeletal rearrangements, vesicular transport and endocytosis. In the CIP4 protein the FCH domain binds to microtubules []. The FCH domain is always found N-terminally and is followed by a coiled-coil region. Proteins containing an FCH domain can be divided in 3 classes []: A subfamily of protein kinases usually associated with an SH2 domain: Fps/fes (Fujimani poultry sarcoma/feline sarcoma) proto-oncogenes. They are non-receptor protein-tyrosine kinases preferentially expressed in myeloid lineage. The viral oncogene has an unregulated kinase activity which abrogates the need for cytokines and influences differentiation of haematopoietic progenitor cells. Fes related protein (fer). It is an ubiquitously expressed homologue of Fes. Adaptor proteins usually associated with a C-terminal SH3 domain: Schizosaccharomyces pombe CDC15 protein. It mediates cytoskeletal rearrangements required for cytokinesis. It is essential for viability. CD2 cytoplasmic domain binding protein. Mammalian Cdc42-interacting protein 4 (CIP4). It may act as a link between Cdc42 signaling and regulation of the actin cytoskeleton. Mammalian PACSIN proteins. A family of cytoplasmic phosphoproteins playing a role in vesicle formation and transport. A subfamily of Rho-GAP proteins: Mammalian RhoGAP4 proteins. They may down-regulate Rho-like GTPases in hematopoietic cells. Yeast hypothetical protein YBR260C. Caenorhabditis elegans hypothetical protein ZK669.1. ; PDB: 2EFK_A 2EFL_A 2X3W_A 2X3X_C 2X3V_C 3I2W_A 3ABH_B 3Q0K_B 3HAJ_A 3ACO_B ....
Probab=27.83 E-value=1.1e+02 Score=20.59 Aligned_cols=48 Identities=13% Similarity=0.336 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHhhhhhcCCCCceecccccccc
Q 031418 12 PAATLAALVSKRSRFQDEL----RNIENQVYELETSYLQDIGQFGNAFKGFEGFLS 63 (160)
Q Consensus 12 ~~~~L~~Ll~kRk~Le~~L----~~LE~qIYd~EtsYLeeT~~~GNIIKGFDgylk 63 (160)
.-.+|..++++|..||++- .+|-.+....- ......|.+-..|+.++.
T Consensus 24 ~~~~l~~~~keRa~lE~~Yak~L~kl~~~~~~~~----~~~~~~~t~~~~~~~~~~ 75 (91)
T PF00611_consen 24 LLEELASFFKERASLEEEYAKSLQKLAKKFKKKM----KSSQEYGTLKNAWDSLLE 75 (91)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHSSS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc----cCCCCccHHHHHHHHHHH
Confidence 4567788888888888754 34444433221 122335777777777664
No 46
>PRK09458 pspB phage shock protein B; Provisional
Probab=27.80 E-value=96 Score=22.65 Aligned_cols=27 Identities=22% Similarity=0.434 Sum_probs=22.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 9 NSNPAATLAALVSKRSRFQDELRNIEN 35 (160)
Q Consensus 9 ~~~~~~~L~~Ll~kRk~Le~~L~~LE~ 35 (160)
+.+=.+.|.+|.++=+++++.+.+||.
T Consensus 37 s~~d~~~L~~L~~~A~rm~~RI~tLE~ 63 (75)
T PRK09458 37 SQEEQQRLAQLTEKAERMRERIQALEA 63 (75)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344567799999999999999999986
No 47
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=27.54 E-value=1e+02 Score=25.60 Aligned_cols=43 Identities=23% Similarity=0.406 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHH------HHHHHHHHHHHHHHHHHH--hhhhhcCCCCcee
Q 031418 13 AATLAALVSKRS------RFQDELRNIENQVYELET--SYLQDIGQFGNAF 55 (160)
Q Consensus 13 ~~~L~~Ll~kRk------~Le~~L~~LE~qIYd~Et--sYLeeT~~~GNII 55 (160)
...|.+|+++-+ +|+.+|..++.+|-..|. .||++-..|..|-
T Consensus 148 ~~rl~~ll~ka~~~~d~l~ie~~L~~v~~eIe~~~~~~~~l~~~v~~sti~ 198 (262)
T PF14257_consen 148 EERLLELLEKAKTVEDLLEIERELSRVRSEIEQLEGQLKYLDDRVDYSTIT 198 (262)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhceEEEE
Confidence 344555555433 677788888888887776 4677655566653
No 48
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=27.32 E-value=92 Score=21.61 Aligned_cols=19 Identities=16% Similarity=0.436 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 031418 25 RFQDELRNIENQVYELETS 43 (160)
Q Consensus 25 ~Le~~L~~LE~qIYd~Ets 43 (160)
+|++.++.||.+|...|+.
T Consensus 25 EL~~RIa~L~aEI~R~~~~ 43 (59)
T PF06698_consen 25 ELEERIALLEAEIARLEAA 43 (59)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4666666666666666654
No 49
>PLN02320 seryl-tRNA synthetase
Probab=27.12 E-value=94 Score=29.61 Aligned_cols=40 Identities=18% Similarity=0.239 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCcee
Q 031418 16 LAALVSKRSRFQDELRNIENQVYELETSYLQDIGQFGNAF 55 (160)
Q Consensus 16 L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~~~GNII 55 (160)
..+|++.=++|.++|..||.++...|....+.-....||+
T Consensus 132 ~~~l~~~~k~lk~~i~~le~~~~~~~~~l~~~~l~iPN~~ 171 (502)
T PLN02320 132 RQALVEEGKNLKEGLVTLEEDLVKLTDELQLEAQSIPNMT 171 (502)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC
Confidence 4456666677888888888888888887766554455554
No 50
>PF06034 DUF919: Nucleopolyhedrovirus protein of unknown function (DUF919); InterPro: IPR009265 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf29. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several short baculovirus proteins of unknown function.
Probab=26.59 E-value=2.3e+02 Score=19.87 Aligned_cols=40 Identities=23% Similarity=0.350 Sum_probs=29.6
Q ss_pred CCCHHHHHHHHHHHHHHHH----------------HHHHHHHHHHHHHHHhhhhhc
Q 031418 9 NSNPAATLAALVSKRSRFQ----------------DELRNIENQVYELETSYLQDI 48 (160)
Q Consensus 9 ~~~~~~~L~~Ll~kRk~Le----------------~~L~~LE~qIYd~EtsYLeeT 48 (160)
..+++.+|.++..-|++|. .+|..|+.++..+=..||+..
T Consensus 3 ~~~L~~QLd~I~~~K~~l~ik~~H~Ekl~kitK~p~El~~i~~kl~~~R~~FLn~~ 58 (62)
T PF06034_consen 3 NRSLTQQLDEINQMKRQLTIKSQHWEKLKKITKNPKELQEIEKKLQELRQNFLNFG 58 (62)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567888888887777765 345777788888888888754
No 51
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=26.55 E-value=1.7e+02 Score=22.99 Aligned_cols=30 Identities=23% Similarity=0.452 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 12 PAATLAALVSKRSRFQDELRNIENQVYELE 41 (160)
Q Consensus 12 ~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~E 41 (160)
++.+|..++-.|.+|+.+|..+++-+-.+|
T Consensus 18 Lq~ql~~~~~qk~~le~qL~E~~~al~Ele 47 (119)
T COG1382 18 LQQQLQKVILQKQQLEAQLKEIEKALEELE 47 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344555555555555555555554444333
No 52
>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=26.07 E-value=1.1e+02 Score=22.15 Aligned_cols=23 Identities=13% Similarity=0.228 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 031418 14 ATLAALVSKRSRFQDELRNIENQ 36 (160)
Q Consensus 14 ~~L~~Ll~kRk~Le~~L~~LE~q 36 (160)
..+.-|.+++..|+.+++.|+++
T Consensus 76 ~~~~ll~~~~~~l~~~i~~L~~~ 98 (99)
T cd04772 76 SALALVDAAHALLQRYRQQLDQE 98 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 33444444555555555555543
No 53
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=26.07 E-value=2e+02 Score=19.01 Aligned_cols=29 Identities=17% Similarity=0.395 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 13 AATLAALVSKRSRFQDELRNIENQVYELE 41 (160)
Q Consensus 13 ~~~L~~Ll~kRk~Le~~L~~LE~qIYd~E 41 (160)
...+..|...-..|..++..|+.+|..+.
T Consensus 32 e~~~~~L~~en~~L~~~~~~L~~~~~~L~ 60 (64)
T PF00170_consen 32 EEKVEELESENEELKKELEQLKKEIQSLK 60 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444455555555555554443
No 54
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=25.86 E-value=83 Score=29.15 Aligned_cols=42 Identities=21% Similarity=0.392 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCc
Q 031418 12 PAATLAALVSKRSRFQDELRNIENQVYELETSYLQDIGQFGN 53 (160)
Q Consensus 12 ~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~~~GN 53 (160)
|..+...|.-...+|+.+|..||..--++-..+|+.|-.+-|
T Consensus 226 lkrQv~SL~~HQ~KLEaEL~q~Ee~hq~kKrk~~estdsf~~ 267 (410)
T KOG4715|consen 226 LKRQVQSLMVHQRKLEAELLQIEERHQEKKRKFLESTDSFNN 267 (410)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHH
Confidence 456777888899999999999999988888889887753433
No 55
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=25.78 E-value=1.6e+02 Score=23.03 Aligned_cols=36 Identities=22% Similarity=0.355 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 031418 13 AATLAALVSKRSRFQDELRNIENQVYELETSYLQDI 48 (160)
Q Consensus 13 ~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT 48 (160)
..++.++.+.-.+++++|.+++..|++.+..+....
T Consensus 80 ~~e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~ 115 (191)
T PF04156_consen 80 QGELSELQQQLQQLQEELDQLQERIQELESELEKLK 115 (191)
T ss_pred hhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 347778888888888999999999998888887644
No 56
>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=25.77 E-value=1.2e+02 Score=22.35 Aligned_cols=25 Identities=16% Similarity=0.335 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 18 ALVSKRSRFQDELRNIENQVYELET 42 (160)
Q Consensus 18 ~Ll~kRk~Le~~L~~LE~qIYd~Et 42 (160)
+|+...++|..++..|+.+|..++.
T Consensus 3 ql~~q~~ql~~~i~~l~~~i~~l~~ 27 (126)
T TIGR00293 3 QLAAELQILQQQVESLQAQIAALRA 27 (126)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444455555555555444443
No 57
>PRK14127 cell division protein GpsB; Provisional
Probab=25.76 E-value=2e+02 Score=22.14 Aligned_cols=32 Identities=22% Similarity=0.218 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 031418 13 AATLAALVSKRSRFQDELRNIENQVYELETSY 44 (160)
Q Consensus 13 ~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsY 44 (160)
...+..|++....|.+++..|+.+|-.++..-
T Consensus 36 ~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~ 67 (109)
T PRK14127 36 IKDYEAFQKEIEELQQENARLKAQVDELTKQV 67 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44566777777788888888888887777643
No 58
>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=25.59 E-value=2e+02 Score=19.12 Aligned_cols=24 Identities=25% Similarity=0.425 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 14 ATLAALVSKRSRFQDELRNIENQV 37 (160)
Q Consensus 14 ~~L~~Ll~kRk~Le~~L~~LE~qI 37 (160)
..|..|-.+=..+.+.|+.||.+|
T Consensus 23 ~~lq~Lt~kL~~vs~RLe~LEn~~ 46 (47)
T PF10393_consen 23 SALQSLTQKLDAVSKRLEALENRL 46 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcc
Confidence 345555544456666666666665
No 59
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=25.49 E-value=67 Score=30.58 Aligned_cols=39 Identities=10% Similarity=0.087 Sum_probs=22.9
Q ss_pred hhcCCCCHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHh
Q 031418 5 QQRGNSNPAATLAALV-------SKRSRFQDELRNIENQVYELETS 43 (160)
Q Consensus 5 ~q~~~~~~~~~L~~Ll-------~kRk~Le~~L~~LE~qIYd~Ets 43 (160)
+|.....+.++|..|- ++++.++.+|+.||.+|-.++..
T Consensus 74 qQ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Q 119 (475)
T PRK13729 74 MQVTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQ 119 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Confidence 3445566666666653 44455666666666666666555
No 60
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=25.15 E-value=1.9e+02 Score=20.78 Aligned_cols=29 Identities=21% Similarity=0.277 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 031418 16 LAALVSKRSRFQDELRNIENQVYELETSY 44 (160)
Q Consensus 16 L~~Ll~kRk~Le~~L~~LE~qIYd~EtsY 44 (160)
..++...+++|...|..||.+|-++|.+-
T Consensus 34 ~~e~~~~~~eL~~~l~~ie~~L~DL~~aV 62 (97)
T PF09177_consen 34 SEELKWLKRELRNALQSIEWDLEDLEEAV 62 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455567778888888888888877653
No 61
>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=24.55 E-value=2.4e+02 Score=19.62 Aligned_cols=29 Identities=21% Similarity=0.428 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 031418 16 LAALVSKRSRFQDELRNIENQVYELETSY 44 (160)
Q Consensus 16 L~~Ll~kRk~Le~~L~~LE~qIYd~EtsY 44 (160)
+..|-.+.+.++.++..|+.++-.++..+
T Consensus 64 ~~~L~~~~~~~~~~i~~l~~~~~~l~~~l 92 (106)
T PF01920_consen 64 IEELEERIEKLEKEIKKLEKQLKYLEKKL 92 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555555555555443
No 62
>PF14703 DUF4463: Domain of unknown function (DUF4463)
Probab=24.35 E-value=1.5e+02 Score=20.19 Aligned_cols=23 Identities=26% Similarity=0.419 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 031418 14 ATLAALVSKRSRFQDELRNIENQ 36 (160)
Q Consensus 14 ~~L~~Ll~kRk~Le~~L~~LE~q 36 (160)
..|..|+.+|+++...|+..+..
T Consensus 6 ~~L~~Lv~~R~~~~~kLE~a~~~ 28 (85)
T PF14703_consen 6 SKLEKLVEEREKAVRKLESAESK 28 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 57889999999887777665443
No 63
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=24.33 E-value=1.1e+02 Score=23.20 Aligned_cols=34 Identities=15% Similarity=0.457 Sum_probs=20.2
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcC
Q 031418 11 NPAATLAALVSKRSRFQDELRNIENQVYELETSYLQDIG 49 (160)
Q Consensus 11 ~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~ 49 (160)
...+++..|-+.+..|+.++..|+.. ..|+++-.
T Consensus 61 ~~~~e~~~L~~~~~~l~~ei~~L~dg-----~~~i~e~A 94 (117)
T COG2919 61 AQQAELEKLSARNTALEAEIKDLKDG-----RDYIEERA 94 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccc-----HHHHHHHH
Confidence 34555666666666666666666555 56777643
No 64
>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]
Probab=24.32 E-value=1.6e+02 Score=28.31 Aligned_cols=42 Identities=21% Similarity=0.295 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCc
Q 031418 12 PAATLAALVSKRSRFQDELRNIENQVYELETSYLQDIGQFGN 53 (160)
Q Consensus 12 ~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~~~GN 53 (160)
+..+|..-+.+|+.|-..|..-|..+.-.|-.||++...+|-
T Consensus 297 lQrkL~~e~erRealcr~lsEsesslemdeery~Ne~~~~g~ 338 (552)
T KOG2129|consen 297 LQRKLINELERREALCRMLSESESSLEMDEERYLNEFVDFGD 338 (552)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhhhhccCC
Confidence 456778888899999999999999999999999998876654
No 65
>PF11855 DUF3375: Protein of unknown function (DUF3375); InterPro: IPR021804 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 479 to 499 amino acids in length.
Probab=24.28 E-value=1.2e+02 Score=28.20 Aligned_cols=30 Identities=17% Similarity=0.365 Sum_probs=25.9
Q ss_pred hcCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 6 QRGNSNPAATLAALVSKRSRFQDELRNIEN 35 (160)
Q Consensus 6 q~~~~~~~~~L~~Ll~kRk~Le~~L~~LE~ 35 (160)
.....|+...|..|-++|.+|+.+|+.|+.
T Consensus 136 ~~~~~Dp~~Ri~~Le~e~~~i~~EI~~l~a 165 (478)
T PF11855_consen 136 EGTDPDPERRIAELEREIAEIDAEIDRLEA 165 (478)
T ss_pred HhcCCCHHHHHHHHHHHHHHHHHHHHHHHC
Confidence 356789999999999999999999998874
No 66
>PF09032 Siah-Interact_N: Siah interacting protein, N terminal ; InterPro: IPR015120 The N-terminal domain of Siah interacting protein (SIP) adopts a helical hairpin structure with a hydrophobic core stabilised by a classic knobs-and-holes arrangement of side chains contributed by the two amphipathic helices. Little is known about this domain's function, except that it is crucial for interactions with Siah. It has also been hypothesised that SIP can dimerise through this N-terminal domain []. ; PDB: 1YSM_A 2A26_C 2A25_B 1X5M_A.
Probab=22.69 E-value=1.9e+02 Score=21.09 Aligned_cols=23 Identities=17% Similarity=0.447 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Q 031418 23 RSRFQDELRNIENQVYELETSYL 45 (160)
Q Consensus 23 Rk~Le~~L~~LE~qIYd~EtsYL 45 (160)
|.-|..++..||.+|-.++-.=+
T Consensus 28 k~~L~~ei~klE~eI~~~~~~~~ 50 (79)
T PF09032_consen 28 KDLLTNEIRKLETEIKKLKEAKA 50 (79)
T ss_dssp HHHHHHHHHHHHHHHHHCHH-H-
T ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Confidence 56788889999999988876433
No 67
>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=22.55 E-value=1.2e+02 Score=21.51 Aligned_cols=23 Identities=26% Similarity=0.267 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 031418 13 AATLAALVSKRSRFQDELRNIEN 35 (160)
Q Consensus 13 ~~~L~~Ll~kRk~Le~~L~~LE~ 35 (160)
.+.|..+-++=..|+.+|+.||.
T Consensus 56 ~~~L~~~r~kl~~LEarl~~LE~ 78 (79)
T PF04380_consen 56 KAVLARTREKLEALEARLAALEA 78 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 34455555556666666666665
No 68
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=22.51 E-value=2.5e+02 Score=20.14 Aligned_cols=31 Identities=19% Similarity=0.395 Sum_probs=22.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 10 SNPAATLAALVSKRSRFQDELRNIENQVYEL 40 (160)
Q Consensus 10 ~~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~ 40 (160)
..+.++.+++-.+=..|+.++..+|.+|+.+
T Consensus 70 ~~l~~e~~~lk~~i~~le~~~~~~e~~l~~~ 100 (108)
T PF02403_consen 70 EELKAEVKELKEEIKELEEQLKELEEELNEL 100 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466667777777777888888888877653
No 69
>PF07397 DUF1502: Repeat of unknown function (DUF1502); InterPro: IPR010871 This family consists of a number of repeats of around 34 residues in length. Members of this family seem to be found in Talaromyces stipitatus and in Murid herpesvirus 4 (MuHV-4) proteins. The function of these repeats and the proetins in which they are found is unknown.
Probab=22.45 E-value=1e+02 Score=19.48 Aligned_cols=18 Identities=44% Similarity=0.883 Sum_probs=14.0
Q ss_pred CCcCCCCCCCCCCCCCCC
Q 031418 112 RSKGGNLPSNGQGKPKRG 129 (160)
Q Consensus 112 ~~~~~~~~~~~~g~~~~~ 129 (160)
|+.+.|-|.-|.|-|--|
T Consensus 1 rsegagcp~RGAGpPAwG 18 (34)
T PF07397_consen 1 RSEGAGCPARGAGPPAWG 18 (34)
T ss_pred CCcccCCcccCcCCcccc
Confidence 567788888888877776
No 70
>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.28 E-value=2.1e+02 Score=25.12 Aligned_cols=31 Identities=19% Similarity=0.336 Sum_probs=25.8
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 11 NPAATLAALVSKRSRFQDELRNIENQVYELE 41 (160)
Q Consensus 11 ~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~E 41 (160)
.+.++++.+.++..+|..+...+|..|-...
T Consensus 54 ~L~~e~~s~Q~~~~~L~~ev~~~~~~~~s~~ 84 (247)
T COG3879 54 DLVKELRSLQKKVNTLAAEVEDLENKLDSVR 84 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5778888888888888888888888887777
No 71
>PF09932 DUF2164: Uncharacterized conserved protein (DUF2164); InterPro: IPR018680 This family of various hypothetical prokaryotic proteins has no known function.
Probab=22.19 E-value=1.7e+02 Score=20.98 Aligned_cols=24 Identities=21% Similarity=0.605 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 18 ALVSKRSRFQDELRNIENQVYELE 41 (160)
Q Consensus 18 ~Ll~kRk~Le~~L~~LE~qIYd~E 41 (160)
.+..-++-+.+.+..|+..||.+|
T Consensus 51 gv~DA~~~~~~r~~~l~~~ly~lE 74 (76)
T PF09932_consen 51 GVQDAQAVLEERMEDLEEELYELE 74 (76)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHhh
Confidence 345567778899999999999987
No 72
>PF09403 FadA: Adhesion protein FadA; InterPro: IPR018543 FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices. ; PDB: 3ETZ_B 3ETY_A 2GL2_B 3ETX_C 3ETW_A.
Probab=22.13 E-value=2.3e+02 Score=22.22 Aligned_cols=27 Identities=15% Similarity=0.234 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 16 LAALVSKRSRFQDELRNIENQVYELET 42 (160)
Q Consensus 16 L~~Ll~kRk~Le~~L~~LE~qIYd~Et 42 (160)
|+..-.-+++|+++++.-|+.|.++|.
T Consensus 95 lk~y~~~~~~L~k~I~~~e~iI~~fe~ 121 (126)
T PF09403_consen 95 LKKYKDLLNKLDKEIAEQEQIIDNFEK 121 (126)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444567889999999999998885
No 73
>PF14282 FlxA: FlxA-like protein
Probab=22.12 E-value=2e+02 Score=21.42 Aligned_cols=28 Identities=11% Similarity=0.281 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 031418 20 VSKRSRFQDELRNIENQVYELETSYLQD 47 (160)
Q Consensus 20 l~kRk~Le~~L~~LE~qIYd~EtsYLee 47 (160)
..+++.|..+|..||.||..+...=-+.
T Consensus 50 ~~q~q~Lq~QI~~LqaQI~qlq~q~~~~ 77 (106)
T PF14282_consen 50 QQQIQLLQAQIQQLQAQIAQLQSQQAEQ 77 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566677788888888888776665544
No 74
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=22.03 E-value=2.6e+02 Score=19.03 Aligned_cols=36 Identities=22% Similarity=0.310 Sum_probs=23.8
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-Hhhhh
Q 031418 11 NPAATLAALVSKRSRFQDELRNIENQVYELE-TSYLQ 46 (160)
Q Consensus 11 ~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~E-tsYLe 46 (160)
...+++..+.++-.+++.+...|+.+|..+- -.|++
T Consensus 28 ~~~~~~~~~~~~~~~l~~en~~L~~ei~~l~~~~rIe 64 (85)
T TIGR02209 28 QLNNELQKLQLEIDKLQKEWRDLQLEVAELSRHERIE 64 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHH
Confidence 4566677777777777777777777776632 34444
No 75
>COG3750 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.03 E-value=2.3e+02 Score=21.22 Aligned_cols=29 Identities=21% Similarity=0.497 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 12 PAATLAALVSKRSRFQDELRNIENQVYEL 40 (160)
Q Consensus 12 ~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~ 40 (160)
...+|++.|.+=+.||++-+.|-.+|-+-
T Consensus 12 a~~QLrafIerIERlEeEk~~i~~dikdv 40 (85)
T COG3750 12 AAGQLRAFIERIERLEEEKKTIADDIKDV 40 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56789999999999999999999998763
No 76
>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=21.97 E-value=1.9e+02 Score=21.26 Aligned_cols=32 Identities=13% Similarity=0.278 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 031418 15 TLAALVSKRSRFQDELRNIENQVYELETSYLQ 46 (160)
Q Consensus 15 ~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLe 46 (160)
++.+++.+=+.+..++..|-.+|..+|+.+-+
T Consensus 4 ~~q~~~~~~q~~q~~~~~l~~q~~~le~~~~E 35 (110)
T TIGR02338 4 QVQNQLAQLQQLQQQLQAVATQKQQVEAQLKE 35 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555666666666666666666666666544
No 77
>TIGR03807 RR_fam_repeat putative cofactor-binding repeat. This model describes a small repeat found in a family of proteins that crosses the plasma membrane by twin-arginine translation, which usually signifies the presence of a bound cofactor. This repeat shows similarity to the beta-helical repeat, in which three beta-strands per repeat wind once per repeat around in a right-handed helical stack of parallel beta structure.
Probab=21.77 E-value=22 Score=21.28 Aligned_cols=17 Identities=29% Similarity=0.351 Sum_probs=12.4
Q ss_pred HHhhhh-hcCCCCceecc
Q 031418 41 ETSYLQ-DIGQFGNAFKG 57 (160)
Q Consensus 41 EtsYLe-eT~~~GNIIKG 57 (160)
.+-|++ ++.-.||||++
T Consensus 8 ~G~y~~~d~~vsGNvIrn 25 (27)
T TIGR03807 8 WGIYLEFDAVVTGNVIRN 25 (27)
T ss_pred eEEEEeeeeEEecceecC
Confidence 345777 66668999985
No 78
>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=21.70 E-value=2.5e+02 Score=20.65 Aligned_cols=29 Identities=14% Similarity=0.276 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 031418 16 LAALVSKRSRFQDELRNIENQVYELETSY 44 (160)
Q Consensus 16 L~~Ll~kRk~Le~~L~~LE~qIYd~EtsY 44 (160)
+..|-.+.+.|+..+..||+++-.++..+
T Consensus 69 ~~~l~~r~e~ie~~i~~lek~~~~l~~~l 97 (110)
T TIGR02338 69 IQELKEKKETLELRVKTLQRQEERLREQL 97 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455555555555555555555443
No 79
>PF11285 DUF3086: Protein of unknown function (DUF3086); InterPro: IPR021437 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=21.65 E-value=1.7e+02 Score=26.20 Aligned_cols=53 Identities=17% Similarity=0.349 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcC----CCCceeccccccccCC
Q 031418 13 AATLAALVSKRSRFQDELRNIENQVYELETSYLQDIG----QFGNAFKGFEGFLSSG 65 (160)
Q Consensus 13 ~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~----~~GNIIKGFDgylkss 65 (160)
.--|++|.++|..|+.++++||..=-..|.+-=..-. ..-==|+||.-|+-++
T Consensus 3 ~~~L~eL~qrk~~Lq~eIe~LerR~~ri~~EmrtsFaG~Sq~lA~RVqGFkdYLvGs 59 (283)
T PF11285_consen 3 QEALKELEQRKQALQIEIEQLERRRERIEKEMRTSFAGQSQDLAIRVQGFKDYLVGS 59 (283)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccchHHHHHHHhhhHHHHHHH
Confidence 3468999999999999999999887776665433221 1222378999999864
No 80
>PF11598 COMP: Cartilage oligomeric matrix protein; InterPro: IPR024665 Thrombospondins are adhesive glycoproteins that mediate cell-to-cell and cell-to-matrix interactions. Cartilage oligomeric matrix protein may play a role in the structural integrity of cartilage via its interaction with other extracellular matrix proteins such as collagen and fibronectin [, ]. Thrombospondin 3 and 4 and cartilage oligomeric matrix proteins contain a five-stranded coiled-coil domain represented by this entry. This domain has a binding site between two internal rings formed by Leu37 and Thr40 [].; PDB: 1MZ9_D 1FBM_A 1VDF_E.
Probab=21.59 E-value=2.5e+02 Score=18.50 Aligned_cols=31 Identities=23% Similarity=0.296 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 031418 13 AATLAALVSKRSRFQDELRNIENQVYELETSYLQDI 48 (160)
Q Consensus 13 ~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT 48 (160)
-.+|.+|.+-=.+|.+.| .+| -+|+.||..|
T Consensus 7 ~~ql~~l~~~l~elk~~l---~~Q--~kE~~~LRnt 37 (45)
T PF11598_consen 7 IKQLSELNQMLQELKELL---RQQ--IKETRFLRNT 37 (45)
T ss_dssp HHHHHHHHHHHHHHHHHH---HHH--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH---HHH--HHHHHHHHHH
Confidence 344445444444444443 334 4799999865
No 81
>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=21.12 E-value=2.5e+02 Score=18.92 Aligned_cols=19 Identities=32% Similarity=0.576 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 031418 23 RSRFQDELRNIENQVYELE 41 (160)
Q Consensus 23 Rk~Le~~L~~LE~qIYd~E 41 (160)
+..|+++|..||.+|-..+
T Consensus 6 ~~rL~Kel~kl~~~i~~~~ 24 (66)
T PF10458_consen 6 IERLEKELEKLEKEIERLE 24 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555444
No 82
>PF07195 FliD_C: Flagellar hook-associated protein 2 C-terminus; InterPro: IPR010809 The flagellar hook-associated protein 2 (HAP2 or FliD) forms the distal end of the flagella, and plays a role in mucin specific adhesion of the bacteria []. This alignment covers the C-terminal region of the flagellar hook-associated protein 2.; GO: 0007155 cell adhesion, 0009288 bacterial-type flagellum
Probab=21.12 E-value=2.5e+02 Score=23.16 Aligned_cols=37 Identities=11% Similarity=0.240 Sum_probs=25.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 031418 11 NPAATLAALVSKRSRFQDELRNIENQVYELETSYLQD 47 (160)
Q Consensus 11 ~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLee 47 (160)
.+......|-..-+.|++++..+|.+|..+|..|...
T Consensus 190 ~i~~~~~~l~~~~~~~~~~i~~~~~rl~~~~~~l~~q 226 (239)
T PF07195_consen 190 SITSRIDSLNSQIKSLDKQIEDLEERLESKEERLRKQ 226 (239)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455566666677777777777777777777654
No 83
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=20.84 E-value=2.8e+02 Score=19.76 Aligned_cols=29 Identities=28% Similarity=0.390 Sum_probs=22.6
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 10 SNPAATLAALVSKRSRFQDELRNIENQVY 38 (160)
Q Consensus 10 ~~~~~~L~~Ll~kRk~Le~~L~~LE~qIY 38 (160)
..+.++|+.|..++..+..++..++.+|-
T Consensus 73 ~~l~~~l~~l~~~~~~~~~~~~~~~~~~~ 101 (104)
T PF13600_consen 73 KELEEELEALEDELAALQDEIQALEAQIA 101 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35677788888888888888888888774
No 84
>COG0718 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.74 E-value=1.1e+02 Score=23.39 Aligned_cols=30 Identities=10% Similarity=0.320 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 031418 15 TLAALVSKRSRFQDELRNIENQVYELETSY 44 (160)
Q Consensus 15 ~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsY 44 (160)
.+..|.++=+++++++.++|++|++.|-++
T Consensus 6 ~~~~l~kqaqqmQ~~~~~~Q~ela~~ev~g 35 (105)
T COG0718 6 DMQKLMKQAQQMQKKMQKMQEELAQKEVTG 35 (105)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhcEEee
Confidence 356777888889999999999999887544
No 85
>PF13747 DUF4164: Domain of unknown function (DUF4164)
Probab=20.63 E-value=2.4e+02 Score=20.59 Aligned_cols=35 Identities=26% Similarity=0.342 Sum_probs=28.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 8 GNSNPAATLAALVSKRSRFQDELRNIENQVYELET 42 (160)
Q Consensus 8 ~~~~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~Et 42 (160)
....+..++..|-..|..|..+|.+.|...-.+|.
T Consensus 33 ~~~~~e~ei~~l~~dr~rLa~eLD~~~ar~~~Le~ 67 (89)
T PF13747_consen 33 KRDELEEEIQRLDADRSRLAQELDQAEARANRLEE 67 (89)
T ss_pred hhhhHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHH
Confidence 34677888888999999999999999887655553
No 86
>PRK09343 prefoldin subunit beta; Provisional
Probab=20.60 E-value=2.8e+02 Score=21.01 Aligned_cols=36 Identities=14% Similarity=0.237 Sum_probs=25.5
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 031418 11 NPAATLAALVSKRSRFQDELRNIENQVYELETSYLQ 46 (160)
Q Consensus 11 ~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLe 46 (160)
++..+|.+++.+=+.+..+|..+-.++..+|+.+=+
T Consensus 4 ~~~~~~q~~~~~~q~lq~~l~~~~~q~~~le~q~~e 39 (121)
T PRK09343 4 NIPPEVQAQLAQLQQLQQQLERLLQQKSQIDLELRE 39 (121)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466777777777777777777777777777666544
No 87
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. 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 st
Probab=20.53 E-value=2.7e+02 Score=20.20 Aligned_cols=28 Identities=14% Similarity=0.347 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031418 15 TLAALVSKRSRFQDELRNIENQVYELET 42 (160)
Q Consensus 15 ~L~~Ll~kRk~Le~~L~~LE~qIYd~Et 42 (160)
.+..+-..-+.|+.++..|++++-+++.
T Consensus 71 ~~e~le~~i~~l~~~~~~l~~~~~elk~ 98 (105)
T cd00632 71 RLETIELRIKRLERQEEDLQEKLKELQE 98 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444444444444444444443
No 88
>PF14362 DUF4407: Domain of unknown function (DUF4407)
Probab=20.42 E-value=2.7e+02 Score=23.61 Aligned_cols=50 Identities=18% Similarity=0.161 Sum_probs=37.8
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCC-CCceeccccc
Q 031418 11 NPAATLAALVSKRSRFQDELRNIENQVYELETSYLQDIGQ-FGNAFKGFEG 60 (160)
Q Consensus 11 ~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~~-~GNIIKGFDg 60 (160)
....++..+......|+.++..+|++|-+.+..|-.|... .|.-+-|..-
T Consensus 132 ~~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~E~~g~~~tg~~G~Gp 182 (301)
T PF14362_consen 132 SFDAQIARLDAEIAALQAEIDQLEKEIDRAQQEAQCEIFGTGGTGVPGKGP 182 (301)
T ss_pred HhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCc
Confidence 4466778888888999999999999999999999988752 2333334433
No 89
>KOG2685 consensus Cystoskeletal protein Tektin [Cytoskeleton]
Probab=20.18 E-value=1.4e+02 Score=28.15 Aligned_cols=41 Identities=12% Similarity=0.157 Sum_probs=33.7
Q ss_pred hhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 031418 5 QQRGNSNPAATLAALVSKRSRFQDELRNIENQVYELETSYL 45 (160)
Q Consensus 5 ~q~~~~~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYL 45 (160)
++.++.++...+.++-.-|..|+++|+.|..+|.+++..|.
T Consensus 68 q~dtt~~L~~R~~di~~Wk~el~~ele~l~~E~~~L~~~k~ 108 (421)
T KOG2685|consen 68 QRDTTEKLGQRLDDVNFWKGELDRELEDLAAEIDDLLHEKR 108 (421)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455667777888888899999999999999999998885
No 90
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=20.12 E-value=3.1e+02 Score=19.04 Aligned_cols=50 Identities=16% Similarity=0.206 Sum_probs=35.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCCCceeccccccc
Q 031418 10 SNPAATLAALVSKRSRFQDELRNIENQVYELETSYLQDIGQFGNAFKGFEGFL 62 (160)
Q Consensus 10 ~~~~~~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYLeeT~~~GNIIKGFDgyl 62 (160)
..+...|..+..+...++..+..|+..+-..+..+-.... .|..-|+.+.
T Consensus 3 ~~L~~~l~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~---~I~~~f~~l~ 52 (127)
T smart00502 3 EALEELLTKLRKKAAELEDALKQLISIIQEVEENAADVEA---QIKAAFDELR 52 (127)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHH
Confidence 3567788888888888888888888888888776655433 4444455443
No 91
>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=20.03 E-value=3.5e+02 Score=19.50 Aligned_cols=27 Identities=15% Similarity=0.330 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031418 17 AALVSKRSRFQDELRNIENQVYELETS 43 (160)
Q Consensus 17 ~~Ll~kRk~Le~~L~~LE~qIYd~Ets 43 (160)
.-+-++...|++++..|+++|-.++..
T Consensus 90 ~~l~~r~~~l~~~~~~l~~~~~~~~~~ 116 (129)
T cd00890 90 EFLKKRLETLEKQIEKLEKQLEKLQDQ 116 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444455555555555555544443
No 92
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=20.02 E-value=2e+02 Score=22.47 Aligned_cols=32 Identities=19% Similarity=0.353 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHh
Q 031418 12 PAATLAALVSKR--------SRFQDELRNIENQVYELETS 43 (160)
Q Consensus 12 ~~~~L~~Ll~kR--------k~Le~~L~~LE~qIYd~Ets 43 (160)
+..+|+.++.+= ..|..++..||+||.++|..
T Consensus 66 ~~r~i~~ml~~~~~~r~~~~~~l~~rvd~Lerqv~~Lenk 105 (108)
T COG3937 66 IPRKIEEMLSDLEVARQSEMDELTERVDALERQVADLENK 105 (108)
T ss_pred hhHHHHHHHhhccccccchHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555443 36778888888888888754
No 93
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=20.02 E-value=2.5e+02 Score=26.44 Aligned_cols=31 Identities=16% Similarity=0.475 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 031418 15 TLAALVSKRSRFQDELRNIENQVYELETSYL 45 (160)
Q Consensus 15 ~L~~Ll~kRk~Le~~L~~LE~qIYd~EtsYL 45 (160)
.+...-.++.+|+++|..+|.+|-..|..-.
T Consensus 53 ~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~ 83 (420)
T COG4942 53 KIREQQDQRAKLEKQLKSLETEIASLEAQLI 83 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444455555555555555555554443
Done!