Query 024038
Match_columns 273
No_of_seqs 194 out of 428
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 08:28:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024038.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024038hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3149 Transcription initiati 100.0 1.2E-42 2.7E-47 317.6 17.0 228 40-267 5-247 (249)
2 COG5033 TFG3 Transcription ini 100.0 2.4E-38 5.2E-43 282.1 8.7 198 41-261 4-216 (225)
3 PF03366 YEATS: YEATS family; 100.0 1E-35 2.2E-40 232.2 8.0 82 71-152 1-82 (84)
4 PF04102 SlyX: SlyX; InterPro 65.0 18 0.00038 27.2 5.0 37 233-269 17-53 (69)
5 PF04568 IATP: Mitochondrial A 62.6 20 0.00043 29.3 5.2 32 233-264 68-99 (100)
6 PF14193 DUF4315: Domain of un 61.1 17 0.00037 28.7 4.5 31 236-266 3-33 (83)
7 PF04201 TPD52: Tumour protein 60.2 14 0.00031 32.7 4.3 38 234-271 29-66 (162)
8 PF01920 Prefoldin_2: Prefoldi 58.7 21 0.00046 27.5 4.7 45 224-268 52-96 (106)
9 PF07334 IFP_35_N: Interferon- 58.2 11 0.00023 29.6 2.8 26 245-270 4-29 (76)
10 KOG1760 Molecular chaperone Pr 57.3 24 0.00052 30.2 5.0 46 224-269 71-116 (131)
11 PF05377 FlaC_arch: Flagella a 57.1 30 0.00066 25.5 4.9 35 233-267 6-40 (55)
12 PRK02119 hypothetical protein; 56.9 36 0.00078 26.0 5.5 38 233-270 22-59 (73)
13 PRK04325 hypothetical protein; 55.4 38 0.00082 25.9 5.4 37 233-269 22-58 (74)
14 PRK00846 hypothetical protein; 55.2 37 0.00081 26.5 5.4 38 233-270 26-63 (77)
15 PF04977 DivIC: Septum formati 54.8 20 0.00044 26.2 3.8 32 236-267 19-50 (80)
16 PRK02793 phi X174 lysis protei 54.6 40 0.00086 25.7 5.4 38 233-270 21-58 (72)
17 PRK00736 hypothetical protein; 52.0 49 0.0011 24.9 5.5 37 233-269 18-54 (68)
18 PRK04406 hypothetical protein; 51.2 50 0.0011 25.4 5.5 37 233-269 24-60 (75)
19 PRK00295 hypothetical protein; 49.7 54 0.0012 24.6 5.4 36 233-268 18-53 (68)
20 PF14723 SSFA2_C: Sperm-specif 47.8 41 0.00089 30.3 5.1 33 231-263 142-174 (179)
21 PLN00172 ubiquitin conjugating 47.3 46 0.001 28.2 5.3 35 68-102 27-61 (147)
22 TIGR03017 EpsF chain length de 45.7 45 0.00097 32.4 5.6 46 227-272 157-202 (444)
23 PF07106 TBPIP: Tat binding pr 44.7 43 0.00093 28.7 4.8 37 233-269 71-107 (169)
24 TIGR01005 eps_transp_fam exopo 44.2 45 0.00098 35.0 5.7 71 167-272 155-225 (754)
25 TIGR02449 conserved hypothetic 43.6 28 0.0006 26.4 3.0 21 234-254 39-59 (65)
26 PF09154 DUF1939: Domain of un 43.1 14 0.0003 27.1 1.2 14 113-126 36-49 (57)
27 TIGR02338 gimC_beta prefoldin, 41.5 64 0.0014 25.9 5.1 35 233-267 73-107 (110)
28 PF07820 TraC: TraC-like prote 41.1 36 0.00078 27.6 3.4 22 243-264 4-25 (92)
29 PF05524 PEP-utilisers_N: PEP- 40.9 56 0.0012 26.3 4.6 29 232-260 33-61 (123)
30 PRK11519 tyrosine kinase; Prov 39.2 57 0.0012 34.4 5.5 49 224-272 250-298 (719)
31 PF02370 M: M protein repeat; 39.0 68 0.0015 19.4 3.5 20 241-260 1-20 (21)
32 cd00890 Prefoldin Prefoldin is 38.9 61 0.0013 25.8 4.6 43 225-267 78-120 (129)
33 cd00632 Prefoldin_beta Prefold 38.4 76 0.0017 25.2 5.0 43 226-268 55-97 (105)
34 PF07544 Med9: RNA polymerase 38.1 55 0.0012 25.4 4.0 33 237-269 35-80 (83)
35 PF13600 DUF4140: N-terminal d 37.6 81 0.0018 24.7 5.0 35 233-267 69-103 (104)
36 PF04380 BMFP: Membrane fusoge 37.5 74 0.0016 24.5 4.6 30 233-262 49-78 (79)
37 PF13815 Dzip-like_N: Iguana/D 37.1 76 0.0016 25.9 4.9 37 233-269 79-115 (118)
38 PRK14127 cell division protein 36.2 65 0.0014 26.7 4.3 30 235-264 38-67 (109)
39 PRK13848 conjugal transfer pro 36.1 42 0.00092 27.4 3.1 20 244-263 6-25 (98)
40 KOG4010 Coiled-coil protein TP 35.6 59 0.0013 29.8 4.3 39 234-272 44-82 (208)
41 PRK09841 cryptic autophosphory 35.4 76 0.0016 33.6 5.8 48 224-271 250-297 (726)
42 PF12329 TMF_DNA_bd: TATA elem 35.1 82 0.0018 24.0 4.5 34 234-267 33-66 (74)
43 smart00212 UBCc Ubiquitin-conj 34.1 1.3E+02 0.0028 24.8 5.9 42 69-110 26-69 (145)
44 COG1730 GIM5 Predicted prefold 32.5 98 0.0021 26.8 5.0 35 233-267 100-134 (145)
45 KOG4552 Vitamin-D-receptor int 31.9 84 0.0018 29.4 4.7 37 229-265 55-91 (272)
46 PF04508 Pox_A_type_inc: Viral 31.1 56 0.0012 20.2 2.3 19 249-267 2-20 (23)
47 PF06305 DUF1049: Protein of u 30.1 85 0.0018 22.5 3.7 24 244-267 44-67 (68)
48 PRK14127 cell division protein 30.1 1.3E+02 0.0029 24.8 5.3 37 233-269 29-65 (109)
49 PF00170 bZIP_1: bZIP transcri 29.0 1.6E+02 0.0034 21.3 4.9 35 234-268 26-60 (64)
50 PF05529 Bap31: B-cell recepto 28.9 58 0.0012 28.4 3.1 27 243-269 156-182 (192)
51 PRK00888 ftsB cell division pr 28.9 79 0.0017 25.6 3.6 21 235-255 42-62 (105)
52 PF01166 TSC22: TSC-22/dip/bun 28.2 28 0.0006 26.1 0.8 15 249-263 22-36 (59)
53 PF12329 TMF_DNA_bd: TATA elem 28.1 1.4E+02 0.0031 22.7 4.7 36 233-268 18-53 (74)
54 cd00890 Prefoldin Prefoldin is 27.8 1.5E+02 0.0032 23.6 5.1 35 233-267 93-127 (129)
55 smart00787 Spc7 Spc7 kinetocho 27.7 96 0.0021 29.9 4.6 36 233-268 203-238 (312)
56 PF04977 DivIC: Septum formati 26.9 1.5E+02 0.0032 21.6 4.6 28 233-260 23-50 (80)
57 COG3074 Uncharacterized protei 26.9 1.3E+02 0.0029 23.5 4.4 36 233-268 24-59 (79)
58 PF08647 BRE1: BRE1 E3 ubiquit 26.8 1.3E+02 0.0029 23.7 4.6 33 234-266 3-35 (96)
59 TIGR03007 pepcterm_ChnLen poly 25.9 98 0.0021 30.6 4.4 35 237-271 157-191 (498)
60 PF12269 zf-CpG_bind_C: CpG bi 25.8 1.3E+02 0.0028 28.2 4.9 37 233-269 28-64 (236)
61 PRK03947 prefoldin subunit alp 25.3 1.6E+02 0.0035 24.3 5.0 35 234-268 101-135 (140)
62 PF06156 DUF972: Protein of un 25.3 1.5E+02 0.0032 24.3 4.7 14 235-248 23-36 (107)
63 PF09766 FimP: Fms-interacting 24.7 84 0.0018 30.6 3.7 37 233-269 107-143 (355)
64 cd00632 Prefoldin_beta Prefold 24.2 1.9E+02 0.0041 22.9 5.1 34 234-267 70-103 (105)
65 PRK11546 zraP zinc resistance 22.7 1.9E+02 0.0041 25.1 5.0 35 234-268 47-81 (143)
66 PF02996 Prefoldin: Prefoldin 22.7 1.3E+02 0.0029 23.7 3.9 30 236-265 86-115 (120)
67 PF11932 DUF3450: Protein of u 22.6 1.6E+02 0.0034 26.9 4.8 31 234-264 63-93 (251)
68 PF08317 Spc7: Spc7 kinetochor 22.3 1.4E+02 0.003 28.5 4.6 33 233-265 208-240 (325)
69 PF10458 Val_tRNA-synt_C: Valy 22.2 1.9E+02 0.004 21.2 4.3 25 234-258 4-28 (66)
70 PF08826 DMPK_coil: DMPK coile 22.2 2.5E+02 0.0054 21.0 4.9 29 233-261 17-45 (61)
71 COG0103 RpsI Ribosomal protein 21.9 14 0.0003 31.6 -2.0 51 75-131 18-69 (130)
72 cd00584 Prefoldin_alpha Prefol 21.5 2.2E+02 0.0048 23.0 5.1 30 236-265 96-125 (129)
73 PF09006 Surfac_D-trimer: Lung 21.5 78 0.0017 22.6 2.0 17 251-267 2-18 (46)
74 PF12958 DUF3847: Protein of u 21.3 1.9E+02 0.0041 23.1 4.4 32 236-267 3-34 (86)
75 smart00338 BRLZ basic region l 21.3 2.5E+02 0.0055 20.2 4.8 35 234-268 26-60 (65)
76 PF10393 Matrilin_ccoil: Trime 21.0 1.9E+02 0.0042 20.6 3.9 31 237-267 12-42 (47)
77 TIGR02231 conserved hypothetic 20.8 1.7E+02 0.0038 29.5 5.1 37 233-269 137-173 (525)
78 PF02996 Prefoldin: Prefoldin 20.6 2.1E+02 0.0045 22.6 4.6 43 225-267 68-110 (120)
79 PF04111 APG6: Autophagy prote 20.5 1.9E+02 0.0042 27.6 5.2 29 233-261 63-91 (314)
80 PF12548 DUF3740: Sulfatase pr 20.3 1.1E+02 0.0025 26.4 3.2 28 236-263 101-128 (145)
81 PF02403 Seryl_tRNA_N: Seryl-t 20.1 2.5E+02 0.0054 22.0 5.0 37 233-269 28-64 (108)
No 1
>KOG3149 consensus Transcription initiation factor IIF, auxiliary subunit [Transcription]
Probab=100.00 E-value=1.2e-42 Score=317.59 Aligned_cols=228 Identities=36% Similarity=0.582 Sum_probs=184.4
Q ss_pred cccceeceEEEEEEEEccceEEcCCCCCCCCeeeEEEEEeCCCCCCcccceeeeEEEeCCCCCCCcceeecCCcEEEeee
Q 024038 40 LNKKLKDVEISIPIVYGNVAFWLGKKASEYQSHKWTVYVRGATNEDLGVVIKRAVFQLHSSFNNPTRAVESPPFELSESG 119 (273)
Q Consensus 40 ~~kR~k~~~I~~pIv~Gn~A~~l~kk~~~~~tH~WtVyVr~~~~edls~~IkKV~F~LHpSF~nP~Rvv~~PPFeVtE~G 119 (273)
+.+|++.++|+++|+|||.|.+++++.++.+||.|+|||||.+++|++.||+||+|+||+||+||+|+|++|||+|+|+|
T Consensus 5 ~~~~~~~~~~~~~iv~G~~a~~~~~~~~~~~th~w~v~v~~~~~ed~~~~V~KV~f~LH~sf~~P~Rvv~~pPf~i~EtG 84 (249)
T KOG3149|consen 5 SIKRTKECTISVPIVPGNRAAILGKRLPDGFTHIWEVYVRGPGKEDISAFVDKVVFKLHESFPNPRRVVESPPFEITETG 84 (249)
T ss_pred CcceeeeeeEEeeeecCccccccCCCCCcccceeeEEEecCcCccccceeeeeeeeecccccccccccccCCCceEEeec
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEEEEEEEeecCCCCCEEEEEEeecCCCCCC---C-----------CCcCCCCeEEEeee-EEEeeCCCHHHHHHH
Q 024038 120 WGEFEIAITLYFHADVCDKPLNLYHHLKLYPEDES---G-----------SMSTKKPVVVESYD-EIVFPEPSDSFLARV 184 (273)
Q Consensus 120 WGEFeI~IkI~F~~~~~ekp~~l~H~L~L~~~~~~---~-----------~~~~~~~V~~e~yd-EIvF~nPse~f~~~L 184 (273)
||+|+|.|+|||.++.+++++.++|+|.|++++.. . ....+.+|+++.|+ +++|++|++.++..+
T Consensus 85 wgeF~i~i~i~f~d~~~~~~v~~~~~l~l~~~~~p~~~~~~~~~~~~~~~~~~~r~~v~~~~~~~e~~f~~~~~~~~~~~ 164 (249)
T KOG3149|consen 85 WGEFEIQIEIFFTDDANEKKVTLYHDLKLHSYGAPPVPHEESTKKTFVNPTISLRIPVVREGVDVEIVFPDPTESTSIEA 164 (249)
T ss_pred cccceEEEEEEeccCCCCceeeeeeeEEeeccCCCCccchhhhcccccccchhcccccccccccceeecCCCCccccccc
Confidence 99999999999999999999999999999987431 1 12347799999999 999999999999999
Q ss_pred hcCCCccCCCCCCCCCCCCCCCCcccccccCCCCCCCCcchhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 024038 185 QNHPAVTLPRLPVGFTLPPPVPIEDTSKRKRGDTKDHPLAQWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQ 264 (273)
Q Consensus 185 ~~~~~~~~p~~p~~~~lp~~~~~~~~~~~~~~~~~~~~~~~~f~~~~E~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~ 264 (273)
...+..+..+.+....++............+.++++.-...+.-...|..+.++++.+.+.++.++.++++++..++++.
T Consensus 165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~e~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~ 244 (249)
T KOG3149|consen 165 SSRPVGPGSNLAAVTDLKQVKSKTLPSLLSKESSKDVKTEKSSERPNEIDEVDRLEKKIKELKKEINKVRKDIEKLEGEI 244 (249)
T ss_pred CCCCCcCCccccccccccccccccCcccccccccccccccccccccccchhhhhhhhhhhhhhhHHHHHHHhhhhccccc
Confidence 98875443332222222211111111111222232322334445566899999999999999999999999999999886
Q ss_pred hhc
Q 024038 265 QQL 267 (273)
Q Consensus 265 ~~~ 267 (273)
...
T Consensus 245 ~~~ 247 (249)
T KOG3149|consen 245 DLQ 247 (249)
T ss_pred ccc
Confidence 543
No 2
>COG5033 TFG3 Transcription initiation factor IIF, auxiliary subunit [Transcription]
Probab=100.00 E-value=2.4e-38 Score=282.10 Aligned_cols=198 Identities=27% Similarity=0.455 Sum_probs=165.5
Q ss_pred ccceeceEEEEEEEEccceEEcCCC--CCCCCeeeEEEEEeCCCCCCcccceeeeEEEeCCCCCCCcceeecCCcEEEee
Q 024038 41 NKKLKDVEISIPIVYGNVAFWLGKK--ASEYQSHKWTVYVRGATNEDLGVVIKRAVFQLHSSFNNPTRAVESPPFELSES 118 (273)
Q Consensus 41 ~kR~k~~~I~~pIv~Gn~A~~l~kk--~~~~~tH~WtVyVr~~~~edls~~IkKV~F~LHpSF~nP~Rvv~~PPFeVtE~ 118 (273)
.+|+.++.++++|++| .|..++.. .+-.+||-|.||||++.+||+++||+||+|+|||||+||+|++++|||+|.|+
T Consensus 4 ~krt~r~~t~r~Iipg-ea~~~~~e~~~P~r~th~w~v~v~~~g~E~~~~iv~KVifkLH~Tf~NP~Rti~~pPFeI~Et 82 (225)
T COG5033 4 VKRTERLKTQRVIIPG-EAKPLGNEERFPVRHTHIWLVFVRAPGKEDIATIVKKVIFKLHPTFSNPTRTIESPPFEIKET 82 (225)
T ss_pred ceeeEeeeeeceeccC-ccccCCccccCCchhhEEEEEEEeCCCCcchhhhhheeeEEeccccCCCcccccCCCcEEEec
Confidence 5899999999999999 99999864 78889999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEEEEEEEEeecCCCCCEEEEEEeecCCCCCCCC-------------CcCCCCeEEEeeeEEEeeCCCHHHHHHHh
Q 024038 119 GWGEFEIAITLYFHADVCDKPLNLYHHLKLYPEDESGS-------------MSTKKPVVVESYDEIVFPEPSDSFLARVQ 185 (273)
Q Consensus 119 GWGEFeI~IkI~F~~~~~ekp~~l~H~L~L~~~~~~~~-------------~~~~~~V~~e~ydEIvF~nPse~f~~~L~ 185 (273)
|||||+|.|+|||.++++++.+.++|++.++++....+ .+....|-+..+++++|++|...++++|+
T Consensus 83 GWGEF~i~I~iff~~~age~~~~fyl~f~~~~Y~v~~~v~~~~~~~~l~~elsk~geve~~~~~~~~~nep~i~~~k~~~ 162 (225)
T COG5033 83 GWGEFDIQIKIFFAEKAGEKTIHFYLHFGDEPYAVDEPVDIPVNRPDLTSELSKSGEVESVYKREKRFNEPNIQALKLLN 162 (225)
T ss_pred ccccceEEEEEEEecCCCceEeehhhhcccccccccccccccccccchhhhhhhcCcccceeeeeecccCchhHHHHhhh
Confidence 99999999999999999999777777777777642111 12345677778999999999999999999
Q ss_pred cCCCccCCCCCCCCCCCCCCCCcccccccCCCCCCCCcchhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024038 186 NHPAVTLPRLPVGFTLPPPVPIEDTSKRKRGDTKDHPLAQWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLID 261 (273)
Q Consensus 186 ~~~~~~~p~~p~~~~lp~~~~~~~~~~~~~~~~~~~~~~~~f~~~~E~~El~~l~~a~~kV~~~i~~lk~~l~~~e 261 (273)
..+.. .+..|+.- .+. ...|+.+.++++++++..+.+++...|+.++.....+-
T Consensus 163 ~~~~~------~a~gl~~~------------~ed----d~~~v~Ql~~d~~~~v~~~ie~~~~~id~y~~~~~~L~ 216 (225)
T COG5033 163 GAKMK------LAIGLHKL------------RED----DLVFVVQLVQDPIMAVLNLIEKGEFKIDLYKLPSDLLH 216 (225)
T ss_pred cCccc------ccccCccc------------ccc----cceeeEecCcCHHHHHHhccccCceEeeehhCchhhhh
Confidence 87631 12233321 011 35688999999999999999999999999887666543
No 3
>PF03366 YEATS: YEATS family; InterPro: IPR005033 Named the YEATS family, after `YNK7', `ENL', `AF-9', and `TFIIF small subunit', this family also contains the GAS41 protein. All these proteins are thought to have a transcription stimulatory activity.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3QRL_A 2L7E_A 3FK3_C 3RLS_A.
Probab=100.00 E-value=1e-35 Score=232.20 Aligned_cols=82 Identities=54% Similarity=1.007 Sum_probs=70.5
Q ss_pred eeeEEEEEeCCCCCCcccceeeeEEEeCCCCCCCcceeecCCcEEEeeeEEEEEEEEEEEEeecCCCCCEEEEEEeecCC
Q 024038 71 SHKWTVYVRGATNEDLGVVIKRAVFQLHSSFNNPTRAVESPPFELSESGWGEFEIAITLYFHADVCDKPLNLYHHLKLYP 150 (273)
Q Consensus 71 tH~WtVyVr~~~~edls~~IkKV~F~LHpSF~nP~Rvv~~PPFeVtE~GWGEFeI~IkI~F~~~~~ekp~~l~H~L~L~~ 150 (273)
||+|+||||+.+++|++++|+||+|+|||||+||+|+|++|||+|+|+|||||+|.|+|||+++++++++++.|+|+|++
T Consensus 1 th~W~v~Vr~~~~~d~~~~i~kV~f~LHpsF~~p~r~v~~pPFevte~GWGeF~i~I~i~f~~~~~~~~~~~~h~L~l~~ 80 (84)
T PF03366_consen 1 THKWTVYVRGLDNEDLSYFIKKVTFKLHPSFPNPVRVVTKPPFEVTETGWGEFEIPIKIHFKDPSNEKPVTIQHDLKLHQ 80 (84)
T ss_dssp -EEEEEEEEECCCT--TTTEEEEEEES-TTSSS-EEECSSTTEEEEEEESS--EEEEEEECCCGGCTCEEEEEEE--SSS
T ss_pred CcEEEEEEEeCCCCCccceEEEEEEECCCCCCCCceEecCCCCEEEEeEeccEEEEEEEEEeCCCCCCcEEEEEEEEcCC
Confidence 79999999999999999999999999999999999999999999999999999999999999877899999999999997
Q ss_pred CC
Q 024038 151 ED 152 (273)
Q Consensus 151 ~~ 152 (273)
++
T Consensus 81 ~~ 82 (84)
T PF03366_consen 81 DG 82 (84)
T ss_dssp CE
T ss_pred CC
Confidence 54
No 4
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=64.96 E-value=18 Score=27.15 Aligned_cols=37 Identities=24% Similarity=0.424 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccC
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 269 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~ 269 (273)
.+.++.|..+-..=+.+|++|+.+++.+..++..+..
T Consensus 17 e~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~~ 53 (69)
T PF04102_consen 17 EDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELED 53 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4668888988888899999999999999999988873
No 5
>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=62.64 E-value=20 Score=29.31 Aligned_cols=32 Identities=16% Similarity=0.296 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQ 264 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~ 264 (273)
+.|.++|..-++++.++|+..+++|+.+|..+
T Consensus 68 ~~EkEqL~~Lk~kl~~e~~~~~k~i~~le~~I 99 (100)
T PF04568_consen 68 KKEKEQLKKLKEKLKEEIEHHRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 56777888888888888888999998888765
No 6
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=61.07 E-value=17 Score=28.69 Aligned_cols=31 Identities=19% Similarity=0.390 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 024038 236 LLQLAAARQQVQAHIAKLKRQISLIDGQQQQ 266 (273)
Q Consensus 236 l~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~ 266 (273)
++||.+=..|+.+.|+++..+|+.|+.+...
T Consensus 3 leKi~~eieK~k~Kiae~Q~rlK~Le~qk~E 33 (83)
T PF14193_consen 3 LEKIRAEIEKTKEKIAELQARLKELEAQKTE 33 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788888899999999999999999877544
No 7
>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma. Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].
Probab=60.21 E-value=14 Score=32.66 Aligned_cols=38 Identities=16% Similarity=0.263 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCC
Q 024038 234 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRSTS 271 (273)
Q Consensus 234 ~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~~~ 271 (273)
+|-+.|..-..||.+||..||+-|..+|.....||+--
T Consensus 29 eE~eeLr~EL~KvEeEI~TLrqvL~aKer~~~eLKrkL 66 (162)
T PF04201_consen 29 EEREELRSELAKVEEEIQTLRQVLAAKERHCAELKRKL 66 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 45666777899999999999999999999998888643
No 8
>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=58.75 E-value=21 Score=27.51 Aligned_cols=45 Identities=16% Similarity=0.417 Sum_probs=35.7
Q ss_pred chhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 024038 224 AQWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 268 (273)
Q Consensus 224 ~~~f~~~~E~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k 268 (273)
|.-|-..+-.+-+..|..-...+..+|++++.+++.++..++.++
T Consensus 52 G~~fv~~~~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~ 96 (106)
T PF01920_consen 52 GKMFVKQDKEEAIEELEERIEKLEKEIKKLEKQLKYLEKKLKELK 96 (106)
T ss_dssp TTEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344777777777888888888888888888888888888876654
No 9
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=58.23 E-value=11 Score=29.56 Aligned_cols=26 Identities=27% Similarity=0.418 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhccCC
Q 024038 245 QVQAHIAKLKRQISLIDGQQQQLRST 270 (273)
Q Consensus 245 kV~~~i~~lk~~l~~~e~~~~~~k~~ 270 (273)
.++++.++|+++|+++|.+||+++..
T Consensus 4 ei~eEn~~Lk~eiqkle~ELq~~~~~ 29 (76)
T PF07334_consen 4 EIQEENARLKEEIQKLEAELQQNKRE 29 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 35666777777777777777776654
No 10
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=57.32 E-value=24 Score=30.21 Aligned_cols=46 Identities=15% Similarity=0.296 Sum_probs=40.1
Q ss_pred chhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccC
Q 024038 224 AQWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 269 (273)
Q Consensus 224 ~~~f~~~~E~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~ 269 (273)
+..|....-....+.|..++..+.++|+.|..+++....++++||.
T Consensus 71 GdvF~~~~~~~~~~~LEe~ke~l~k~i~~les~~e~I~~~m~~LK~ 116 (131)
T KOG1760|consen 71 GDVFIHVKLDKLQDQLEEKKETLEKEIEELESELESISARMDELKK 116 (131)
T ss_pred hhhheeccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556667777788999999999999999999999999999999885
No 11
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=57.07 E-value=30 Score=25.50 Aligned_cols=35 Identities=14% Similarity=0.304 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 267 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~ 267 (273)
..++.+|......|+.+++++++.+.+++...+.|
T Consensus 6 En~~~~~~~~i~tvk~en~~i~~~ve~i~envk~l 40 (55)
T PF05377_consen 6 ENELPRIESSINTVKKENEEISESVEKIEENVKDL 40 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45688999999999999999999999988776543
No 12
>PRK02119 hypothetical protein; Provisional
Probab=56.90 E-value=36 Score=26.01 Aligned_cols=38 Identities=18% Similarity=0.250 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCC
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRST 270 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~~ 270 (273)
.+.++.|..+..+=+++|+.|+++|+.+-.++..+.++
T Consensus 22 E~tie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~~~~~ 59 (73)
T PRK02119 22 ENLLEELNQALIEQQFVIDKMQVQLRYMANKLKDMQPS 59 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 46788899998888999999999999998887776543
No 13
>PRK04325 hypothetical protein; Provisional
Probab=55.41 E-value=38 Score=25.91 Aligned_cols=37 Identities=22% Similarity=0.214 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccC
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 269 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~ 269 (273)
.+.++.|..+..+=+.+|..|+++|+.+-.++..+..
T Consensus 22 E~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~~~~ 58 (74)
T PRK04325 22 EDLIDGLNATVARQQQTLDLLQAQLRLLYQQMRDANP 58 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4678889999888899999999999999877766653
No 14
>PRK00846 hypothetical protein; Provisional
Probab=55.17 E-value=37 Score=26.51 Aligned_cols=38 Identities=21% Similarity=0.163 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCC
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRST 270 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~~ 270 (273)
.+.++.|..+..+-+.+|++|+.+|+.+-.++..+.++
T Consensus 26 e~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~~s 63 (77)
T PRK00846 26 EQALTELSEALADARLTGARNAELIRHLLEDLGKVRST 63 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 46688888888888999999999999888888777654
No 15
>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=54.82 E-value=20 Score=26.23 Aligned_cols=32 Identities=22% Similarity=0.321 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 024038 236 LLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 267 (273)
Q Consensus 236 l~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~ 267 (273)
+.++....+.++.++++++++...++.+++.|
T Consensus 19 ~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 19 YYQLNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34444444455555555555555555555555
No 16
>PRK02793 phi X174 lysis protein; Provisional
Probab=54.65 E-value=40 Score=25.68 Aligned_cols=38 Identities=13% Similarity=0.232 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCC
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRST 270 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~~ 270 (273)
.+.++.|..+..+-+.+|..|+++|+.+-.++..+..+
T Consensus 21 e~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~~~ 58 (72)
T PRK02793 21 EITIEELNVTVTAHEMEMAKLRDHLRLLTEKLKASQPS 58 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 46688888888888999999999999998887776654
No 17
>PRK00736 hypothetical protein; Provisional
Probab=52.00 E-value=49 Score=24.89 Aligned_cols=37 Identities=5% Similarity=0.197 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccC
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 269 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~ 269 (273)
.+.++.|..+..+=+++|+.|+++|+.+-.++..+..
T Consensus 18 e~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~~~~ 54 (68)
T PRK00736 18 EKTIEELSDQLAEQWKTVEQMRKKLDALTERFLSLEE 54 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3668888888888889999999999998877766553
No 18
>PRK04406 hypothetical protein; Provisional
Probab=51.19 E-value=50 Score=25.40 Aligned_cols=37 Identities=24% Similarity=0.343 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccC
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 269 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~ 269 (273)
.+.++.|..+...=+++|..|+.+|+.+-.++..+.+
T Consensus 24 E~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~~~ 60 (75)
T PRK04406 24 EQTIEELNDALSQQQLLITKMQDQMKYVVGKVKNMDS 60 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 4668888888888889999999999999877766654
No 19
>PRK00295 hypothetical protein; Provisional
Probab=49.73 E-value=54 Score=24.65 Aligned_cols=36 Identities=19% Similarity=0.250 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 268 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k 268 (273)
.+.++.|..+..+=+++|..|+++|+.+-.++..+.
T Consensus 18 E~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00295 18 DDTIQALNDVLVEQQRVIERLQLQMAALIKRQEEMV 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 466888888888888999999999999887776654
No 20
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=47.75 E-value=41 Score=30.27 Aligned_cols=33 Identities=27% Similarity=0.215 Sum_probs=28.0
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 024038 231 SEADELLQLAAARQQVQAHIAKLKRQISLIDGQ 263 (273)
Q Consensus 231 ~E~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~ 263 (273)
.|..|.+.|..-|+.|++|+++|.-||...--+
T Consensus 142 eER~EaeQLQsLR~avRqElqELE~QL~DRl~~ 174 (179)
T PF14723_consen 142 EEREEAEQLQSLRSAVRQELQELEFQLEDRLLQ 174 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 368999999999999999999999988765443
No 21
>PLN00172 ubiquitin conjugating enzyme; Provisional
Probab=47.29 E-value=46 Score=28.22 Aligned_cols=35 Identities=9% Similarity=0.198 Sum_probs=25.4
Q ss_pred CCCeeeEEEEEeCCCCCCcccceeeeEEEeCCCCC
Q 024038 68 EYQSHKWTVYVRGATNEDLGVVIKRAVFQLHSSFN 102 (273)
Q Consensus 68 ~~~tH~WtVyVr~~~~edls~~IkKV~F~LHpSF~ 102 (273)
+++.+.|.+.+.|+.+.....-+=++.+.+.+.|+
T Consensus 27 ~~nl~~w~~~i~GP~~tpyegg~f~~~i~fp~~YP 61 (147)
T PLN00172 27 DENLFRWTASIIGPSDSPYAGGVFFLSILFPPDYP 61 (147)
T ss_pred CCChheEEEEEECCCCCCCCCCEEEEEEECCcccC
Confidence 35799999999998765443334467777788876
No 22
>TIGR03017 EpsF chain length determinant protein EpsF. Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=45.65 E-value=45 Score=32.36 Aligned_cols=46 Identities=9% Similarity=0.111 Sum_probs=36.4
Q ss_pred ccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCC
Q 024038 227 FMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRSTSD 272 (273)
Q Consensus 227 f~~~~E~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~~~~ 272 (273)
|..+.-..-.+....+...++.++++++++|...|..++.++...+
T Consensus 157 y~~~~~~~~~~~~~~~~~fl~~ql~~~~~~l~~ae~~l~~fr~~~~ 202 (444)
T TIGR03017 157 YIDTNIELKVEPAQKAALWFVQQIAALREDLARAQSKLSAYQQEKG 202 (444)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 4444444556677788999999999999999999999988876543
No 23
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=44.69 E-value=43 Score=28.70 Aligned_cols=37 Identities=24% Similarity=0.478 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccC
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 269 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~ 269 (273)
.+|+..|+.-...+++++..++.+++.++.++..|..
T Consensus 71 ~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~ 107 (169)
T PF07106_consen 71 PEELAELDAEIKELREELAELKKEVKSLEAELASLSS 107 (169)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4567777777777777888887777777777766654
No 24
>TIGR01005 eps_transp_fam exopolysaccharide transport protein family. The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.
Probab=44.17 E-value=45 Score=35.01 Aligned_cols=71 Identities=20% Similarity=0.186 Sum_probs=52.9
Q ss_pred eeeEEEeeCCCHHHHHHHhcCCCccCCCCCCCCCCCCCCCCcccccccCCCCCCCCcchhccCccHHHHHHHHHHHHHHH
Q 024038 167 SYDEIVFPEPSDSFLARVQNHPAVTLPRLPVGFTLPPPVPIEDTSKRKRGDTKDHPLAQWFMNFSEADELLQLAAARQQV 246 (273)
Q Consensus 167 ~ydEIvF~nPse~f~~~L~~~~~~~~p~~p~~~~lp~~~~~~~~~~~~~~~~~~~~~~~~f~~~~E~~El~~l~~a~~kV 246 (273)
..-+|.|..+.+.+-..+.+. +.+.|..+.-..-.+....|...+
T Consensus 155 ~ii~Is~~~~dP~~Aa~iaN~-----------------------------------la~~Y~~~~~~~k~~~~~~a~~~L 199 (754)
T TIGR01005 155 RIIAIEFRSEDPKLAAAIPDA-----------------------------------IAAAYIAGQGAAKSESNTAAADFL 199 (754)
T ss_pred EEEEEEEecCCHHHHHHHHHH-----------------------------------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677888888777766653 233455444445567778899999
Q ss_pred HHHHHHHHHHHHHHHhhhhhccCCCC
Q 024038 247 QAHIAKLKRQISLIDGQQQQLRSTSD 272 (273)
Q Consensus 247 ~~~i~~lk~~l~~~e~~~~~~k~~~~ 272 (273)
.+++.+++++|...|.+++..|..++
T Consensus 200 ~~ql~~l~~~l~~aE~~l~~fk~~~~ 225 (754)
T TIGR01005 200 APEIADLSKQSRDAEAEVAAYRAQSD 225 (754)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 99999999999999999998886554
No 25
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=43.61 E-value=28 Score=26.44 Aligned_cols=21 Identities=43% Similarity=0.471 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 024038 234 DELLQLAAARQQVQAHIAKLK 254 (273)
Q Consensus 234 ~El~~l~~a~~kV~~~i~~lk 254 (273)
.=+++...|+.+|.++|..|+
T Consensus 39 ~L~ekne~Ar~rvEamI~RLk 59 (65)
T TIGR02449 39 QLLEKNEQARQKVEAMITRLK 59 (65)
T ss_pred HHHHHHHHHHHHHHHHHHhhh
Confidence 346788999999999999876
No 26
>PF09154 DUF1939: Domain of unknown function (DUF1939); InterPro: IPR015237 This entry represents a C-terminal domain associated with prokaryotic alpha-amylases. It adopts a secondary structure consisting of an eight-stranded antiparallel beta-sheet containing a Greek key motif. Its exact function has not, as yet, been determined []. ; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds; PDB: 1MXD_A 1MWO_A 1MXG_A 1W9X_A 2DIE_A 1VJS_A 1BPL_B 1BLI_A 1OB0_A 1E3Z_A ....
Probab=43.14 E-value=14 Score=27.12 Aligned_cols=14 Identities=43% Similarity=1.149 Sum_probs=10.2
Q ss_pred cEEEeeeEEEEEEE
Q 024038 113 FELSESGWGEFEIA 126 (273)
Q Consensus 113 FeVtE~GWGEFeI~ 126 (273)
-.+.|.|||+|.++
T Consensus 36 vtid~dG~~~f~v~ 49 (57)
T PF09154_consen 36 VTIDEDGWGEFPVP 49 (57)
T ss_dssp EEE-TTSEEEEEE-
T ss_pred EEECCCeEEEEEEC
Confidence 35789999999986
No 27
>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=41.52 E-value=64 Score=25.93 Aligned_cols=35 Identities=14% Similarity=0.202 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 267 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~ 267 (273)
.+.++.|....+.+.+.++.++++++.++..++++
T Consensus 73 ~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~~ 107 (110)
T TIGR02338 73 KEKKETLELRVKTLQRQEERLREQLKELQEKIQEA 107 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677778888888888888888888888887664
No 28
>PF07820 TraC: TraC-like protein; InterPro: IPR012930 The members of this family are sequences that are similar to TraC (Q84HT8 from SWISSPROT) from Rhizobium etli. The gene encoding this protein is one of a group of genes found on plasmid p42a of Rhizobium etli (strain CFN 42/ATCC 51251) that are thought to be involved in the process of plasmid self-transmission. Mobilisation of plasmid p42a is of importance as it is required for transfer of plasmid p42d, the symbiotic plasmid which carries most of the genes required for nodulation and nitrogen fixation by this symbiotic bacterium. The predicted protein products of p42a are similar to known transfer proteins of Agrobacterium tumefaciens plasmid pTiC58 []. ; GO: 0000746 conjugation
Probab=41.06 E-value=36 Score=27.59 Aligned_cols=22 Identities=18% Similarity=0.419 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhh
Q 024038 243 RQQVQAHIAKLKRQISLIDGQQ 264 (273)
Q Consensus 243 ~~kV~~~i~~lk~~l~~~e~~~ 264 (273)
..+++++|++|+++|+.++...
T Consensus 4 ~s~I~~eIekLqe~lk~~e~ke 25 (92)
T PF07820_consen 4 SSKIREEIEKLQEQLKQAETKE 25 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4678899999999999888553
No 29
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=40.92 E-value=56 Score=26.27 Aligned_cols=29 Identities=14% Similarity=0.189 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024038 232 EADELLQLAAARQQVQAHIAKLKRQISLI 260 (273)
Q Consensus 232 E~~El~~l~~a~~kV~~~i~~lk~~l~~~ 260 (273)
-..|+.||..|..++.+++..+.+++...
T Consensus 33 ~~~E~~rl~~Al~~~~~eL~~l~~~~~~~ 61 (123)
T PF05524_consen 33 IEAEIERLEQALEKAREELEQLAERAESK 61 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 36799999999999999999999886543
No 30
>PRK11519 tyrosine kinase; Provisional
Probab=39.18 E-value=57 Score=34.44 Aligned_cols=49 Identities=4% Similarity=0.195 Sum_probs=37.0
Q ss_pred chhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCC
Q 024038 224 AQWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRSTSD 272 (273)
Q Consensus 224 ~~~f~~~~E~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~~~~ 272 (273)
.+.|.++.-..-.+....+...+++++.+++++|...|..++..|...+
T Consensus 250 ~~~Yi~~~~~~k~~~a~~a~~fL~~ql~~l~~~L~~aE~~l~~fr~~~~ 298 (719)
T PRK11519 250 TRNYLEQNIERKSEEASKSLAFLAQQLPEVRSRLDVAENKLNAFRQDKD 298 (719)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 3445555544445556678889999999999999999999998876543
No 31
>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=39.04 E-value=68 Score=19.42 Aligned_cols=20 Identities=25% Similarity=0.365 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 024038 241 AARQQVQAHIAKLKRQISLI 260 (273)
Q Consensus 241 ~a~~kV~~~i~~lk~~l~~~ 260 (273)
+|+++|.++.++|..+...+
T Consensus 1 ~akk~lEa~~qkLe~e~q~~ 20 (21)
T PF02370_consen 1 EAKKQLEADHQKLEAEKQIS 20 (21)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHhhc
Confidence 47777888777777666544
No 32
>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=38.91 E-value=61 Score=25.84 Aligned_cols=43 Identities=19% Similarity=0.278 Sum_probs=24.2
Q ss_pred hhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 024038 225 QWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 267 (273)
Q Consensus 225 ~~f~~~~E~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~ 267 (273)
..|-..+-.+-.+.|......++.+++++.+++..+..+++.+
T Consensus 78 ~~~ve~~~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l 120 (129)
T cd00890 78 GVYVEKSLEEAIEFLKKRLETLEKQIEKLEKQLEKLQDQITEL 120 (129)
T ss_pred CEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555545555566656666666666666555555555444
No 33
>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=38.37 E-value=76 Score=25.17 Aligned_cols=43 Identities=14% Similarity=0.251 Sum_probs=23.4
Q ss_pred hccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 024038 226 WFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 268 (273)
Q Consensus 226 ~f~~~~E~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k 268 (273)
.|-..+-.+-+..|..-...+...|.++..+++.++.+++.++
T Consensus 55 vfv~~~~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk 97 (105)
T cd00632 55 VLVKQEKEEARTELKERLETIELRIKRLERQEEDLQEKLKELQ 97 (105)
T ss_pred HHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555554455555555555555555555555555555554443
No 34
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=38.13 E-value=55 Score=25.37 Aligned_cols=33 Identities=24% Similarity=0.332 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHH-------------HHHHHHHHHHHHHhhhhhccC
Q 024038 237 LQLAAARQQVQA-------------HIAKLKRQISLIDGQQQQLRS 269 (273)
Q Consensus 237 ~~l~~a~~kV~~-------------~i~~lk~~l~~~e~~~~~~k~ 269 (273)
-||..||+.|.. +|+.|++++..+.+-++++|.
T Consensus 35 ~Klq~ar~~i~~lpgi~~s~eeq~~~i~~Le~~i~~k~~~L~~~~~ 80 (83)
T PF07544_consen 35 HKLQKARAAIRELPGIDRSVEEQEEEIEELEEQIRKKREVLQKFKE 80 (83)
T ss_pred HHHHHHHHHHHhCCCccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467777777765 677777777777777777664
No 35
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=37.65 E-value=81 Score=24.66 Aligned_cols=35 Identities=23% Similarity=0.356 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 267 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~ 267 (273)
..++.+|.+..+.++.+++.+++++..++.+++-|
T Consensus 69 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~L 103 (104)
T PF13600_consen 69 SPELKELEEELEALEDELAALQDEIQALEAQIAFL 103 (104)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 46788888888888888888888888888776654
No 36
>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=37.45 E-value=74 Score=24.49 Aligned_cols=30 Identities=10% Similarity=0.251 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDG 262 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~ 262 (273)
.+|++-..+.-.+.++.|+.|..+|..+|.
T Consensus 49 REEFd~q~~~L~~~r~kl~~LEarl~~LE~ 78 (79)
T PF04380_consen 49 REEFDAQKAVLARTREKLEALEARLAALEA 78 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 677777777766666777766666666654
No 37
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=37.13 E-value=76 Score=25.93 Aligned_cols=37 Identities=27% Similarity=0.390 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccC
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 269 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~ 269 (273)
...+..+.+..+...+++++++..++..+.++..||.
T Consensus 79 ~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~k~lk~ 115 (118)
T PF13815_consen 79 SSQLEQLEERLQELQQEIEKLKQKLKKQKEEIKKLKK 115 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667778888888888888888888888888877764
No 38
>PRK14127 cell division protein GpsB; Provisional
Probab=36.24 E-value=65 Score=26.69 Aligned_cols=30 Identities=20% Similarity=0.247 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 024038 235 ELLQLAAARQQVQAHIAKLKRQISLIDGQQ 264 (273)
Q Consensus 235 El~~l~~a~~kV~~~i~~lk~~l~~~e~~~ 264 (273)
+++.|..-....+++++.|+.+|..++.++
T Consensus 38 dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~ 67 (109)
T PRK14127 38 DYEAFQKEIEELQQENARLKAQVDELTKQV 67 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 333444444444444444444444444443
No 39
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=36.12 E-value=42 Score=27.41 Aligned_cols=20 Identities=25% Similarity=0.476 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 024038 244 QQVQAHIAKLKRQISLIDGQ 263 (273)
Q Consensus 244 ~kV~~~i~~lk~~l~~~e~~ 263 (273)
.++++||++|+++|+.++..
T Consensus 6 s~I~~eI~kLqe~lk~~e~k 25 (98)
T PRK13848 6 SKIREEIAKLQEQLKQAETR 25 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 46788889999988888754
No 40
>KOG4010 consensus Coiled-coil protein TPD52 [General function prediction only]
Probab=35.55 E-value=59 Score=29.77 Aligned_cols=39 Identities=15% Similarity=0.275 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCCC
Q 024038 234 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRSTSD 272 (273)
Q Consensus 234 ~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~~~~ 272 (273)
+|-+-|..-..+|.+||..||+-|..+|.-+..||+--|
T Consensus 44 ~Ekeelr~EL~kvEeEI~TLrqVLaAKerH~~ELKRKLG 82 (208)
T KOG4010|consen 44 EEKEELRTELAKVEEEIVTLRQVLAAKERHAAELKRKLG 82 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 334456667789999999999999999999988887543
No 41
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=35.36 E-value=76 Score=33.56 Aligned_cols=48 Identities=10% Similarity=0.174 Sum_probs=37.1
Q ss_pred chhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCC
Q 024038 224 AQWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRSTS 271 (273)
Q Consensus 224 ~~~f~~~~E~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~~~ 271 (273)
.+-|.++.-.+-.+.-..|...+++++.+++++|...|.+++.+|...
T Consensus 250 a~~Yi~~~l~~k~~~a~~a~~fL~~qL~~l~~~L~~aE~~l~~fr~~~ 297 (726)
T PRK09841 250 ANNYLQQNIARQAAQDSQSLEFLQRQLPEVRSELDQAEEKLNVYRQQR 297 (726)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 344555444444566677889999999999999999999999888654
No 42
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=35.14 E-value=82 Score=24.01 Aligned_cols=34 Identities=18% Similarity=0.409 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 024038 234 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 267 (273)
Q Consensus 234 ~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~ 267 (273)
..+.+|.+..+....+|..++.++...+..++.|
T Consensus 33 ~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l 66 (74)
T PF12329_consen 33 NTIKKLRAKIKELEKQIKELKKKLEELEKELESL 66 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555555555555555554444
No 43
>smart00212 UBCc Ubiquitin-conjugating enzyme E2, catalytic domain homologues. Proteins destined for proteasome-mediated degradation may be ubiquitinated. Ubiquitination follows conjugation of ubiquitin to a conserved cysteine residue of UBC homologues. This pathway functions in regulating many fundamental processes required for cell viability.TSG101 is one of several UBC homologues that lacks this active site cysteine.
Probab=34.11 E-value=1.3e+02 Score=24.84 Aligned_cols=42 Identities=12% Similarity=0.152 Sum_probs=27.2
Q ss_pred CCeeeEEEEEeCCCCCCcccceeeeEEEeCCCCCC--Ccceeec
Q 024038 69 YQSHKWTVYVRGATNEDLGVVIKRAVFQLHSSFNN--PTRAVES 110 (273)
Q Consensus 69 ~~tH~WtVyVr~~~~edls~~IkKV~F~LHpSF~n--P~Rvv~~ 110 (273)
+..+.|.+.+.|+.+.....-+=++++.+.+.|+. |...+..
T Consensus 26 ~~~~~w~~~i~gp~~~~y~g~~f~~~l~~p~~yP~~pP~v~f~~ 69 (145)
T smart00212 26 DNLLEWTGTIVGPPGTPYEGGIFKLTIEFPPDYPFKPPKVKFIT 69 (145)
T ss_pred CChheEEEEEEcCCCCCcCCcEEEEEEECCcccCCCCCEEEEeC
Confidence 37899999999875533222223788888888874 4444333
No 44
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=32.53 E-value=98 Score=26.84 Aligned_cols=35 Identities=26% Similarity=0.415 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 267 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~ 267 (273)
.+.++.|..+++++++.|++|-+++..++.+++++
T Consensus 100 ~k~~~~l~~~~~~l~~~l~~l~~~~~~l~~~~q~~ 134 (145)
T COG1730 100 KKRIEELEKAIEKLQQALAELAQRIEQLEQEAQQL 134 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56678888899999999999988888888777654
No 45
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=31.89 E-value=84 Score=29.42 Aligned_cols=37 Identities=24% Similarity=0.252 Sum_probs=17.3
Q ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 024038 229 NFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQ 265 (273)
Q Consensus 229 ~~~E~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~ 265 (273)
+..|-.++-+|..-.+++.+.|..|+....+.+..+|
T Consensus 55 kd~ef~~llkla~eq~k~e~~m~~Lea~VEkrD~~IQ 91 (272)
T KOG4552|consen 55 KDDEFKTLLKLAPEQQKREQLMRTLEAHVEKRDEVIQ 91 (272)
T ss_pred ccHHHHHHHHHhHhHHHHHHHHHHHHHHHHHhHHHHH
Confidence 3444455555555555555444444444444443333
No 46
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=31.12 E-value=56 Score=20.18 Aligned_cols=19 Identities=21% Similarity=0.387 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHhhhhhc
Q 024038 249 HIAKLKRQISLIDGQQQQL 267 (273)
Q Consensus 249 ~i~~lk~~l~~~e~~~~~~ 267 (273)
||..+|.+++.||.+|..-
T Consensus 2 E~~rlr~rI~dLer~L~~C 20 (23)
T PF04508_consen 2 EMNRLRNRISDLERQLSEC 20 (23)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 6778888888888887643
No 47
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=30.15 E-value=85 Score=22.52 Aligned_cols=24 Identities=17% Similarity=0.475 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhc
Q 024038 244 QQVQAHIAKLKRQISLIDGQQQQL 267 (273)
Q Consensus 244 ~kV~~~i~~lk~~l~~~e~~~~~~ 267 (273)
-+.+.++.+++++++.+|++++++
T Consensus 44 ~~~r~~~~~~~k~l~~le~e~~~l 67 (68)
T PF06305_consen 44 LRLRRRIRRLRKELKKLEKELEQL 67 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344566667777777777776665
No 48
>PRK14127 cell division protein GpsB; Provisional
Probab=30.11 E-value=1.3e+02 Score=24.83 Aligned_cols=37 Identities=16% Similarity=0.196 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccC
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 269 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~ 269 (273)
.+-|+.+..-...+.+++..|++++..++.++..++.
T Consensus 29 D~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~ 65 (109)
T PRK14127 29 DKFLDDVIKDYEAFQKEIEELQQENARLKAQVDELTK 65 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3447778888888889999999999999888876653
No 49
>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=28.96 E-value=1.6e+02 Score=21.26 Aligned_cols=35 Identities=14% Similarity=0.315 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 024038 234 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 268 (273)
Q Consensus 234 ~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k 268 (273)
..+..|..-...+..+...|+.++..+..+.+.|+
T Consensus 26 ~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~ 60 (64)
T PF00170_consen 26 QYIEELEEKVEELESENEELKKELEQLKKEIQSLK 60 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555666666666666666666655554
No 50
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=28.90 E-value=58 Score=28.43 Aligned_cols=27 Identities=19% Similarity=0.409 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhccC
Q 024038 243 RQQVQAHIAKLKRQISLIDGQQQQLRS 269 (273)
Q Consensus 243 ~~kV~~~i~~lk~~l~~~e~~~~~~k~ 269 (273)
.++..+||++++++|+.++.+.+.||.
T Consensus 156 ~~~~~~ei~~lk~el~~~~~~~~~Lkk 182 (192)
T PF05529_consen 156 NKKLSEEIEKLKKELEKKEKEIEALKK 182 (192)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345567888888888887777766653
No 51
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=28.87 E-value=79 Score=25.65 Aligned_cols=21 Identities=33% Similarity=0.302 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 024038 235 ELLQLAAARQQVQAHIAKLKR 255 (273)
Q Consensus 235 El~~l~~a~~kV~~~i~~lk~ 255 (273)
+++++++-++....+|+.|++
T Consensus 42 e~~~l~~~n~~L~~eI~~L~~ 62 (105)
T PRK00888 42 TNAKLKARNDQLFAEIDDLKG 62 (105)
T ss_pred HHHHHHHHHHHHHHHHHHhhC
Confidence 334444444444444444443
No 52
>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation. These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.
Probab=28.16 E-value=28 Score=26.12 Aligned_cols=15 Identities=27% Similarity=0.448 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHhh
Q 024038 249 HIAKLKRQISLIDGQ 263 (273)
Q Consensus 249 ~i~~lk~~l~~~e~~ 263 (273)
.|.+|.++...+|.+
T Consensus 22 ~I~eL~~~n~~Le~E 36 (59)
T PF01166_consen 22 QIAELEERNSQLEEE 36 (59)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444444433
No 53
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=28.10 E-value=1.4e+02 Score=22.73 Aligned_cols=36 Identities=22% Similarity=0.346 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 268 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k 268 (273)
.+|.++|.....+-..-|.+||.+.+.+|.++..++
T Consensus 18 ~eEGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~ 53 (74)
T PF12329_consen 18 MEEGEKLSKKELKLNNTIKKLRAKIKELEKQIKELK 53 (74)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 466777777777778888888888888887776654
No 54
>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=27.79 E-value=1.5e+02 Score=23.56 Aligned_cols=35 Identities=26% Similarity=0.375 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 267 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~ 267 (273)
.+-++.|.....++.+++.++++++..+...++++
T Consensus 93 ~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~~ 127 (129)
T cd00890 93 KKRLETLEKQIEKLEKQLEKLQDQITELQEELQQL 127 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34567777777888888888888888888777653
No 55
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=27.73 E-value=96 Score=29.88 Aligned_cols=36 Identities=14% Similarity=0.187 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 268 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k 268 (273)
++|++++.+....+..+|...+.++..++.+++.++
T Consensus 203 ~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~ 238 (312)
T smart00787 203 PTELDRAKEKLKKLLQEIMIKVKKLEELEEELQELE 238 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 667888887788888888888887777777766553
No 56
>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=26.91 E-value=1.5e+02 Score=21.56 Aligned_cols=28 Identities=18% Similarity=0.331 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLI 260 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~ 260 (273)
..++..|..-.+++++++++|+++++.+
T Consensus 23 ~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 23 NQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 6778888888888888888888888887
No 57
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.90 E-value=1.3e+02 Score=23.48 Aligned_cols=36 Identities=14% Similarity=0.285 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 268 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k 268 (273)
+.|++-|++-.+.+.++...++..-..++.+.++||
T Consensus 24 QmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk 59 (79)
T COG3074 24 QMEIEELKEKNNSLSQEVQNAQHQREALERENEQLK 59 (79)
T ss_pred HHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555666666666666666666666666666555
No 58
>PF08647 BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR013956 BRE1 is an E3 ubiquitin ligase that has been shown to act as a transcriptional activator through direct activator interactions [].
Probab=26.76 E-value=1.3e+02 Score=23.74 Aligned_cols=33 Identities=12% Similarity=0.355 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 024038 234 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQ 266 (273)
Q Consensus 234 ~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~ 266 (273)
.||.+|..|..++...+.....++..+|.....
T Consensus 3 ~EL~~~~~a~~~~~~~~~~k~~~~~~lE~k~~r 35 (96)
T PF08647_consen 3 TELVSMEQAFKELSEQADKKVKELTILEQKKLR 35 (96)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888888888888888877777777765433
No 59
>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily. Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.
Probab=25.86 E-value=98 Score=30.63 Aligned_cols=35 Identities=6% Similarity=0.250 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCCC
Q 024038 237 LQLAAARQQVQAHIAKLKRQISLIDGQQQQLRSTS 271 (273)
Q Consensus 237 ~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~~~ 271 (273)
.....+.+.+++++.+++++|...|..++.++..+
T Consensus 157 ~~~~~~~~fl~~ql~~~~~~L~~ae~~l~~f~~~~ 191 (498)
T TIGR03007 157 QDSDSAQRFIDEQIKTYEKKLEAAENRLKAFKQEN 191 (498)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 44556888899999999999999998888776543
No 60
>PF12269 zf-CpG_bind_C: CpG binding protein zinc finger C terminal domain; InterPro: IPR022056 This domain family is found in eukaryotes, and is approximately 240 amino acids in length. This domain is the zinc finger domain of a CpG binding DNA methyltransferase protein. It contains a CxxC motif which forms the zinc finger and binds to DNA.
Probab=25.77 E-value=1.3e+02 Score=28.24 Aligned_cols=37 Identities=11% Similarity=0.263 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccC
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 269 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~ 269 (273)
...|++|..-+.+|+.++.+|-++.+.++.-++++|.
T Consensus 28 r~~Le~Ir~kq~~v~~~l~eLe~~~~el~~~i~~~k~ 64 (236)
T PF12269_consen 28 RKLLEEIRKKQQKVRNRLQELEKRFKELEAIIARAKQ 64 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4557777777888888888888888888877766554
No 61
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=25.33 E-value=1.6e+02 Score=24.28 Aligned_cols=35 Identities=23% Similarity=0.326 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 024038 234 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 268 (273)
Q Consensus 234 ~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k 268 (273)
+-++.|.....++.+.++.+++++..+...++++.
T Consensus 101 ~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~ 135 (140)
T PRK03947 101 KRKEELEKALEKLEEALQKLASRIAQLAQELQQLQ 135 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666777777777777777777777666553
No 62
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=25.28 E-value=1.5e+02 Score=24.34 Aligned_cols=14 Identities=29% Similarity=0.285 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHHH
Q 024038 235 ELLQLAAARQQVQA 248 (273)
Q Consensus 235 El~~l~~a~~kV~~ 248 (273)
++..|+.....+.+
T Consensus 23 ~~~~LK~~~~~l~E 36 (107)
T PF06156_consen 23 ELEELKKQLQELLE 36 (107)
T ss_pred HHHHHHHHHHHHHH
Confidence 34444444333333
No 63
>PF09766 FimP: Fms-interacting protein; InterPro: IPR019163 This entry represents Thoc5 which is one of the subunits of the THO complex, which additionally contains: HPR1, Thoc2, Thoc6 and Thoc7. The evolutionarily conserved multisubunit THO complex, which is recruited to actively transcribed genes is required for the efficient expression of genes that have internal tandem repeats. It is suggested that the THO complex functions to rectify aberrant structures that arise during transcription [, ] and is required for cell proliferation and for proper export of heat-shock mRNAs under heat stress []. This entry also identifies the crucial 144 N-terminal residues of the FmiP protein, which is essential for the binding of the protein to the cytoplasmic domain of activated Fms-molecules in M-CSF induced haematopoietic differentiation of macrophages. The C terminus contains a putative nuclear localisation sequence and a leucine zipper which suggest further, as yet unknown, nuclear functions. The level of FMIP expression might form a threshold that determines whether cells differentiate into macrophages or into granulocytes [].
Probab=24.72 E-value=84 Score=30.59 Aligned_cols=37 Identities=19% Similarity=0.309 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccC
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 269 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~ 269 (273)
.++++.|...++++.++|++.++.|..++..|..|+.
T Consensus 107 ~~~~~el~~~k~~l~~~~~~k~~~L~~l~~~L~~l~~ 143 (355)
T PF09766_consen 107 EEQLKELEQRKKKLQQENKKKKKFLDSLPPQLKSLKK 143 (355)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 5678888999999999999999999999988877654
No 64
>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=24.18 E-value=1.9e+02 Score=22.87 Aligned_cols=34 Identities=12% Similarity=0.218 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 024038 234 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 267 (273)
Q Consensus 234 ~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~ 267 (273)
+.++.|.....++.+.++.+.++++.++..+.++
T Consensus 70 ~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~~ 103 (105)
T cd00632 70 ERLETIELRIKRLERQEEDLQEKLKELQEKIQQA 103 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456666666667777777777777666665543
No 65
>PRK11546 zraP zinc resistance protein; Provisional
Probab=22.72 E-value=1.9e+02 Score=25.14 Aligned_cols=35 Identities=11% Similarity=0.098 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 024038 234 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 268 (273)
Q Consensus 234 ~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k 268 (273)
+..+.++.-.++-..+++.||++|-.+..+++.|-
T Consensus 47 EQQa~~q~I~~~f~~~t~~LRqqL~aKr~ELnALl 81 (143)
T PRK11546 47 EQQAAWQKIHNDFYAQTSALRQQLVSKRYEYNALL 81 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555666777777778877777777776653
No 66
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=22.69 E-value=1.3e+02 Score=23.69 Aligned_cols=30 Identities=20% Similarity=0.367 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 024038 236 LLQLAAARQQVQAHIAKLKRQISLIDGQQQ 265 (273)
Q Consensus 236 l~~l~~a~~kV~~~i~~lk~~l~~~e~~~~ 265 (273)
++.|.+...++.++++.+++++..++..++
T Consensus 86 ~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~ 115 (120)
T PF02996_consen 86 IKELEEQLEKLEKELAELQAQIEQLEQTLQ 115 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444455555555544444443
No 67
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=22.63 E-value=1.6e+02 Score=26.86 Aligned_cols=31 Identities=16% Similarity=0.326 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 024038 234 DELLQLAAARQQVQAHIAKLKRQISLIDGQQ 264 (273)
Q Consensus 234 ~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~ 264 (273)
.|++.|...+.+++..++.+++++..++.++
T Consensus 63 ~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi 93 (251)
T PF11932_consen 63 REIENLEVYNEQLERQVASQEQELASLEQQI 93 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444444444443
No 68
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=22.34 E-value=1.4e+02 Score=28.49 Aligned_cols=33 Identities=15% Similarity=0.253 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQ 265 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~ 265 (273)
+++|..+......+..+|+..|++|..++.+++
T Consensus 208 ~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~ 240 (325)
T PF08317_consen 208 QEELEALRQELAEQKEEIEAKKKELAELQEELE 240 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555555555555544444444444443
No 69
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=22.22 E-value=1.9e+02 Score=21.23 Aligned_cols=25 Identities=20% Similarity=0.454 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 024038 234 DELLQLAAARQQVQAHIAKLKRQIS 258 (273)
Q Consensus 234 ~El~~l~~a~~kV~~~i~~lk~~l~ 258 (273)
.|+.||..-..+++.+|+.+..+|.
T Consensus 4 ~E~~rL~Kel~kl~~~i~~~~~kL~ 28 (66)
T PF10458_consen 4 AEIERLEKELEKLEKEIERLEKKLS 28 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 5667777777777777666665553
No 70
>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=22.17 E-value=2.5e+02 Score=20.96 Aligned_cols=29 Identities=10% Similarity=0.288 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLID 261 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e 261 (273)
++||.+...+.......+.+-..+-..++
T Consensus 17 ~eEL~kvk~~n~~~e~kLqeaE~rn~eL~ 45 (61)
T PF08826_consen 17 QEELTKVKSANLAFESKLQEAEKRNRELE 45 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566555555444444443333333333
No 71
>COG0103 RpsI Ribosomal protein S9 [Translation, ribosomal structure and biogenesis]
Probab=21.91 E-value=14 Score=31.64 Aligned_cols=51 Identities=20% Similarity=0.232 Sum_probs=35.1
Q ss_pred EEEEeCCCCCCcccceeeeEEEeCCCCCCCcc-eeecCCcEEEeeeEEEEEEEEEEEE
Q 024038 75 TVYVRGATNEDLGVVIKRAVFQLHSSFNNPTR-AVESPPFELSESGWGEFEIAITLYF 131 (273)
Q Consensus 75 tVyVr~~~~edls~~IkKV~F~LHpSF~nP~R-vv~~PPFeVtE~GWGEFeI~IkI~F 131 (273)
+||++...+.- .|..+.|.+. |++.+- ..-.-|+.++++ .|.|+|.|+++=
T Consensus 18 rv~l~~g~G~i---~vNg~~~e~y--f~~e~~r~~i~~Pl~l~~~-~~~~Di~v~V~G 69 (130)
T COG0103 18 RVRLVPGKGKI---TVNGRPLELY--FPRETLRMKIMQPLLLTGT-VGKFDIDVTVKG 69 (130)
T ss_pred EEEEEcCCcEE---EECCcCHHHh--cchHHHHHHHhhhHHHhCc-cccccEEEEEec
Confidence 56764334322 5677777777 775433 333689999999 999999998863
No 72
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=21.47 E-value=2.2e+02 Score=22.97 Aligned_cols=30 Identities=30% Similarity=0.461 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 024038 236 LLQLAAARQQVQAHIAKLKRQISLIDGQQQ 265 (273)
Q Consensus 236 l~~l~~a~~kV~~~i~~lk~~l~~~e~~~~ 265 (273)
++.|.....++.+.+.++++++..++..++
T Consensus 96 ~~~l~~~~~~l~~~l~~l~~~~~~~~~~l~ 125 (129)
T cd00584 96 IEELTKQIEKLQKELAKLKDQINTLEAELQ 125 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455555555555555555555555444
No 73
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=21.47 E-value=78 Score=22.64 Aligned_cols=17 Identities=35% Similarity=0.628 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHhhhhhc
Q 024038 251 AKLKRQISLIDGQQQQL 267 (273)
Q Consensus 251 ~~lk~~l~~~e~~~~~~ 267 (273)
+.||+|+..++++++.|
T Consensus 2 ~aLrqQv~aL~~qv~~L 18 (46)
T PF09006_consen 2 NALRQQVEALQGQVQRL 18 (46)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 34444444444444433
No 74
>PF12958 DUF3847: Protein of unknown function (DUF3847); InterPro: IPR024215 This entry represents a family of uncharacterised proteins that were found by clustering human gut metagenomic sequences [].
Probab=21.33 E-value=1.9e+02 Score=23.07 Aligned_cols=32 Identities=16% Similarity=0.384 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 024038 236 LLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 267 (273)
Q Consensus 236 l~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~ 267 (273)
|+.|.+-..++.++|+....+++.++.+...|
T Consensus 3 Le~l~~e~e~~~~kl~q~e~~~k~L~nr~k~l 34 (86)
T PF12958_consen 3 LEELQAEIEKAEKKLEQAEHKIKQLENRKKKL 34 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55555555666666666555555555554433
No 75
>smart00338 BRLZ basic region leucin zipper.
Probab=21.32 E-value=2.5e+02 Score=20.16 Aligned_cols=35 Identities=23% Similarity=0.398 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Q 024038 234 DELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLR 268 (273)
Q Consensus 234 ~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k 268 (273)
..+..|..-...+..+...|+.++..++.+++.|+
T Consensus 26 ~~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk 60 (65)
T smart00338 26 AEIEELERKVEQLEAENERLKKEIERLRRELEKLK 60 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444445555555555555555555555444
No 76
>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=21.04 E-value=1.9e+02 Score=20.59 Aligned_cols=31 Identities=16% Similarity=0.311 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 024038 237 LQLAAARQQVQAHIAKLKRQISLIDGQQQQL 267 (273)
Q Consensus 237 ~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~ 267 (273)
+.|.+=+.+|...++.|-.+|..+-++++.|
T Consensus 12 Eslv~FQ~~v~~~lq~Lt~kL~~vs~RLe~L 42 (47)
T PF10393_consen 12 ESLVAFQNKVTSALQSLTQKLDAVSKRLEAL 42 (47)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555666677777777777777666666654
No 77
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=20.80 E-value=1.7e+02 Score=29.47 Aligned_cols=37 Identities=19% Similarity=0.358 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccC
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 269 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~ 269 (273)
.+++..|..++..+..++++++++|..++.+++.+-.
T Consensus 137 ~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~~ 173 (525)
T TIGR02231 137 GSEIERLLTEDREAERRIRELEKQLSELQNELNALLT 173 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 4567777788888888888888888888888776643
No 78
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=20.64 E-value=2.1e+02 Score=22.59 Aligned_cols=43 Identities=16% Similarity=0.389 Sum_probs=30.3
Q ss_pred hhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 024038 225 QWFMNFSEADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQL 267 (273)
Q Consensus 225 ~~f~~~~E~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~ 267 (273)
.+|...+-.+-++-|..-.+.+++.++++.+++..+..+++.+
T Consensus 68 ~~~vE~s~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~ 110 (120)
T PF02996_consen 68 GYYVEMSLEEAIEFLKKRIKELEEQLEKLEKELAELQAQIEQL 110 (120)
T ss_dssp TEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred CeEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555566677777777778888888888888877776544
No 79
>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=20.46 E-value=1.9e+02 Score=27.64 Aligned_cols=29 Identities=21% Similarity=0.459 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLID 261 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e 261 (273)
.+||..|...+..+.++|+.++.++..++
T Consensus 63 ~~eL~~LE~e~~~l~~el~~le~e~~~l~ 91 (314)
T PF04111_consen 63 LQELEELEKEREELDQELEELEEELEELD 91 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555666655555555554
No 80
>PF12548 DUF3740: Sulfatase protein; InterPro: IPR024609 This uncharacterised domain is found in the C-terminal region of extracellular sulphatase proteins.
Probab=20.34 E-value=1.1e+02 Score=26.42 Aligned_cols=28 Identities=14% Similarity=0.164 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 024038 236 LLQLAAARQQVQAHIAKLKRQISLIDGQ 263 (273)
Q Consensus 236 l~~l~~a~~kV~~~i~~lk~~l~~~e~~ 263 (273)
.+.-..-+..|+.+|+.|+++|+.|...
T Consensus 101 ~~aWk~hr~~ID~eIe~Lq~Ki~~LKei 128 (145)
T PF12548_consen 101 PKAWKDHRLHIDHEIETLQDKIKNLKEI 128 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445667899999999999999887744
No 81
>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=20.07 E-value=2.5e+02 Score=22.00 Aligned_cols=37 Identities=19% Similarity=0.439 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccC
Q 024038 233 ADELLQLAAARQQVQAHIAKLKRQISLIDGQQQQLRS 269 (273)
Q Consensus 233 ~~El~~l~~a~~kV~~~i~~lk~~l~~~e~~~~~~k~ 269 (273)
.+++-.|...+.+.+.+++.++.+-..+-+++.+++.
T Consensus 28 vd~i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~ 64 (108)
T PF02403_consen 28 VDEIIELDQERRELQQELEELRAERNELSKEIGKLKK 64 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhh
Confidence 4566666666666666666666666666655555443
Done!