Query psy17484
Match_columns 283
No_of_seqs 126 out of 146
Neff 3.5
Searched_HMMs 46136
Date Fri Aug 16 23:39:07 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17484.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17484hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3119|consensus 99.7 1.3E-16 2.9E-21 146.8 13.8 181 101-281 14-258 (269)
2 PF09006 Surfac_D-trimer: Lung 91.6 0.22 4.7E-06 36.3 3.2 28 255-282 2-29 (46)
3 PF14775 NYD-SP28_assoc: Sperm 84.4 1.9 4.1E-05 32.4 4.3 25 254-278 35-59 (60)
4 smart00338 BRLZ basic region l 82.6 2.1 4.6E-05 31.4 3.9 23 254-276 42-64 (65)
5 PF07407 Seadorna_VP6: Seadorn 80.3 1.7 3.6E-05 43.3 3.3 27 254-280 34-60 (420)
6 PRK10265 chaperone-modulator p 77.7 2.8 6.1E-05 33.8 3.4 26 256-281 75-100 (101)
7 PF07989 Microtub_assoc: Micro 75.7 4.9 0.00011 31.4 4.1 34 247-280 38-71 (75)
8 cd00068 GGL G protein gamma su 75.1 2.1 4.6E-05 31.5 1.9 22 256-277 3-24 (57)
9 smart00224 GGL G protein gamma 73.9 1.9 4.2E-05 32.3 1.4 22 256-277 3-24 (63)
10 PRK13922 rod shape-determining 70.4 6.1 0.00013 36.2 4.1 21 249-269 73-93 (276)
11 KOG4196|consensus 70.1 5.8 0.00013 34.6 3.7 25 254-278 83-107 (135)
12 PF02183 HALZ: Homeobox associ 69.9 6.5 0.00014 28.1 3.3 23 254-276 21-43 (45)
13 PF06005 DUF904: Protein of un 69.8 7 0.00015 30.4 3.8 27 254-280 41-71 (72)
14 TIGR02449 conserved hypothetic 64.4 12 0.00025 29.0 3.9 22 254-275 23-44 (65)
15 PRK09413 IS2 repressor TnpA; R 60.4 16 0.00036 29.8 4.4 34 243-276 69-102 (121)
16 PF00170 bZIP_1: bZIP transcri 58.8 19 0.00041 26.4 4.1 21 254-274 42-62 (64)
17 KOG4119|consensus 58.7 11 0.00023 29.7 2.9 29 254-282 9-37 (71)
18 PF07544 Med9: RNA polymerase 58.1 19 0.00042 28.2 4.3 25 257-281 57-81 (83)
19 TIGR00219 mreC rod shape-deter 57.1 14 0.0003 34.9 3.9 23 254-276 75-108 (283)
20 PF08826 DMPK_coil: DMPK coile 56.9 18 0.00039 27.5 3.8 22 252-273 39-60 (61)
21 PF08776 VASP_tetra: VASP tetr 55.4 16 0.00034 26.1 3.0 18 256-273 7-25 (40)
22 PRK14127 cell division protein 54.4 15 0.00033 30.8 3.3 27 254-280 46-72 (109)
23 cd01111 HTH_MerD Helix-Turn-He 54.0 18 0.0004 29.3 3.7 46 232-277 35-105 (107)
24 KOG4196|consensus 53.2 12 0.00026 32.7 2.6 25 254-281 90-114 (135)
25 cd04765 HTH_MlrA-like_sg2 Heli 52.4 9 0.0002 30.7 1.6 43 232-274 35-98 (99)
26 PRK03100 sec-independent trans 51.1 20 0.00044 31.2 3.7 28 246-273 36-71 (136)
27 PF14197 Cep57_CLD_2: Centroso 50.1 17 0.00038 27.9 2.8 20 254-273 49-68 (69)
28 smart00340 HALZ homeobox assoc 49.4 13 0.00028 27.0 1.8 12 254-265 21-32 (44)
29 PRK13922 rod shape-determining 48.5 24 0.00052 32.4 4.0 27 250-276 81-110 (276)
30 PF00631 G-gamma: GGL domain; 47.3 14 0.0003 27.7 1.8 23 255-277 5-27 (68)
31 KOG4378|consensus 46.8 14 0.0003 38.9 2.4 20 254-273 652-671 (673)
32 PF07716 bZIP_2: Basic region 46.8 23 0.0005 25.3 2.9 25 254-278 27-51 (54)
33 PF07407 Seadorna_VP6: Seadorn 45.5 20 0.00042 36.0 3.0 21 254-274 41-61 (420)
34 PF04508 Pox_A_type_inc: Viral 43.9 28 0.00061 22.1 2.5 18 256-273 5-22 (23)
35 KOG3119|consensus 43.1 10 0.00022 35.7 0.7 41 48-88 16-60 (269)
36 PF15035 Rootletin: Ciliary ro 42.1 38 0.00083 30.4 4.1 27 250-276 93-119 (182)
37 PF11598 COMP: Cartilage oligo 41.8 40 0.00087 24.4 3.4 25 255-279 18-42 (45)
38 PF10458 Val_tRNA-synt_C: Valy 41.6 32 0.0007 25.6 3.1 25 258-282 3-27 (66)
39 PF04880 NUDE_C: NUDE protein, 41.2 9.3 0.0002 34.2 0.1 22 254-276 33-54 (166)
40 PRK14127 cell division protein 41.1 33 0.00071 28.8 3.3 28 254-281 39-66 (109)
41 PF12808 Mto2_bdg: Micro-tubul 39.9 40 0.00086 25.1 3.2 25 254-278 24-48 (52)
42 cd04766 HTH_HspR Helix-Turn-He 39.7 26 0.00057 27.1 2.4 45 233-277 36-90 (91)
43 PRK11239 hypothetical protein; 39.5 31 0.00067 32.3 3.2 26 255-280 186-211 (215)
44 PF06295 DUF1043: Protein of u 39.4 40 0.00086 28.3 3.6 25 254-278 27-51 (128)
45 PF06305 DUF1049: Protein of u 38.7 31 0.00067 25.0 2.5 21 252-272 48-68 (68)
46 PF12329 TMF_DNA_bd: TATA elem 37.7 31 0.00067 26.7 2.5 42 236-277 24-72 (74)
47 PRK00182 tatB sec-independent 36.7 45 0.00098 29.9 3.7 26 246-271 36-69 (160)
48 PF11594 Med28: Mediator compl 36.0 42 0.00092 28.3 3.2 27 254-280 37-63 (106)
49 PF11221 Med21: Subunit 21 of 35.0 68 0.0015 27.3 4.4 8 246-253 78-85 (144)
50 COG3132 Uncharacterized protei 34.6 35 0.00075 31.7 2.7 17 254-270 194-210 (215)
51 KOG3156|consensus 34.4 60 0.0013 30.6 4.2 25 254-278 111-135 (220)
52 KOG4010|consensus 33.7 44 0.00094 31.1 3.2 25 256-280 48-72 (208)
53 PF14197 Cep57_CLD_2: Centroso 33.5 47 0.001 25.6 2.9 26 256-281 2-27 (69)
54 COG3074 Uncharacterized protei 33.4 71 0.0015 25.6 3.9 28 254-281 48-79 (79)
55 PRK14872 rod shape-determining 33.1 47 0.001 32.8 3.5 21 252-272 64-84 (337)
56 PF06005 DUF904: Protein of un 33.1 69 0.0015 24.9 3.8 14 254-267 20-33 (72)
57 PF15483 DUF4641: Domain of un 33.0 61 0.0013 33.3 4.4 65 214-279 371-445 (445)
58 PF14182 YgaB: YgaB-like prote 32.2 61 0.0013 26.2 3.4 23 254-276 42-64 (79)
59 PRK11239 hypothetical protein; 31.8 53 0.0012 30.8 3.5 22 254-275 192-213 (215)
60 cd04769 HTH_MerR2 Helix-Turn-H 30.8 56 0.0012 26.4 3.1 22 232-253 34-55 (116)
61 PF04977 DivIC: Septum formati 30.7 75 0.0016 23.2 3.5 21 256-276 28-48 (80)
62 cd01109 HTH_YyaN Helix-Turn-He 30.2 54 0.0012 26.3 2.9 20 234-253 37-56 (113)
63 PF04977 DivIC: Septum formati 29.5 1.1E+02 0.0024 22.3 4.2 18 254-271 33-50 (80)
64 PF05465 Halo_GVPC: Halobacter 29.5 89 0.0019 20.9 3.3 25 256-280 3-27 (32)
65 PF07106 TBPIP: Tat binding pr 29.3 80 0.0017 27.1 4.0 26 254-279 111-136 (169)
66 PF10186 Atg14: UV radiation r 29.1 76 0.0016 28.4 3.9 24 254-277 72-95 (302)
67 KOG1319|consensus 29.0 43 0.00093 31.3 2.4 24 259-282 126-149 (229)
68 PRK00306 50S ribosomal protein 28.8 77 0.0017 23.8 3.3 19 254-272 11-29 (66)
69 cd04790 HTH_Cfa-like_unk Helix 28.8 46 0.001 29.1 2.4 48 234-281 38-103 (172)
70 PF10392 COG5: Golgi transport 28.7 88 0.0019 26.1 4.0 34 248-281 68-102 (132)
71 PRK14872 rod shape-determining 28.6 54 0.0012 32.4 3.1 27 255-281 60-86 (337)
72 PF02403 Seryl_tRNA_N: Seryl-t 28.5 76 0.0016 25.1 3.4 28 254-281 69-96 (108)
73 COG2433 Uncharacterized conser 27.9 79 0.0017 33.9 4.3 26 254-279 438-463 (652)
74 PRK00888 ftsB cell division pr 27.4 85 0.0018 25.7 3.6 20 254-273 43-62 (105)
75 TIGR00012 L29 ribosomal protei 27.1 66 0.0014 23.4 2.6 19 254-272 7-25 (55)
76 PRK14549 50S ribosomal protein 27.1 85 0.0019 24.0 3.3 19 254-272 14-32 (69)
77 PF13863 DUF4200: Domain of un 27.0 99 0.0022 24.8 3.9 27 254-280 76-102 (126)
78 PF07106 TBPIP: Tat binding pr 27.0 83 0.0018 27.0 3.7 26 247-272 81-106 (169)
79 PF10281 Ish1: Putative stress 27.0 36 0.00078 22.8 1.2 15 129-143 7-21 (38)
80 PRK09413 IS2 repressor TnpA; R 26.9 65 0.0014 26.3 2.9 30 247-276 80-111 (121)
81 cd04775 HTH_Cfa-like Helix-Tur 26.8 51 0.0011 26.2 2.2 50 233-282 36-101 (102)
82 PRK00461 rpmC 50S ribosomal pr 26.8 82 0.0018 25.5 3.3 19 254-272 10-28 (87)
83 TIGR02894 DNA_bind_RsfA transc 26.8 1E+02 0.0022 27.7 4.3 23 254-276 113-135 (161)
84 PF03980 Nnf1: Nnf1 ; InterPr 26.4 46 0.001 26.6 1.9 14 254-267 96-109 (109)
85 PRK00888 ftsB cell division pr 25.8 85 0.0019 25.7 3.3 25 254-278 36-60 (105)
86 PF09350 DUF1992: Domain of un 25.5 51 0.0011 25.3 1.9 16 256-271 56-71 (71)
87 PRK10093 primosomal replicatio 25.4 67 0.0015 29.0 2.9 28 255-282 139-166 (171)
88 PF07445 priB_priC: Primosomal 25.4 68 0.0015 28.3 2.9 29 254-282 140-168 (173)
89 PF10384 Scm3: Centromere prot 25.3 87 0.0019 23.6 3.0 22 260-281 2-28 (58)
90 PF09036 Bcr-Abl_Oligo: Bcr-Ab 25.1 61 0.0013 26.1 2.2 27 255-282 23-49 (79)
91 TIGR02894 DNA_bind_RsfA transc 24.9 93 0.002 28.0 3.6 34 247-280 99-132 (161)
92 KOG0313|consensus 24.2 38 0.00083 34.4 1.2 25 118-142 53-81 (423)
93 PF06698 DUF1192: Protein of u 24.1 1.1E+02 0.0023 23.3 3.3 22 255-276 31-52 (59)
94 TIGR02047 CadR-PbrR Cd(II)/Pb( 24.0 69 0.0015 26.5 2.5 21 233-253 36-56 (127)
95 PF06156 DUF972: Protein of un 23.9 77 0.0017 26.3 2.8 20 254-273 38-57 (107)
96 PRK13169 DNA replication intia 23.2 79 0.0017 26.6 2.7 18 254-271 38-55 (110)
97 PF08606 Prp19: Prp19/Pso4-lik 23.1 90 0.002 24.6 2.8 17 254-270 24-40 (70)
98 PF10883 DUF2681: Protein of u 23.1 1.6E+02 0.0035 24.0 4.3 29 247-275 25-53 (87)
99 PF12709 Kinetocho_Slk19: Cent 23.0 1.3E+02 0.0028 24.7 3.8 19 254-272 58-76 (87)
100 PF11382 DUF3186: Protein of u 22.5 1E+02 0.0022 29.5 3.7 36 245-280 32-67 (308)
101 PF01486 K-box: K-box region; 22.4 1E+02 0.0022 24.4 3.1 25 255-279 15-39 (100)
102 TIGR02268 Myxococcus xanthus p 22.2 74 0.0016 31.0 2.7 28 254-281 133-160 (295)
103 KOG2216|consensus 22.1 1.2E+02 0.0025 29.9 3.9 25 257-281 88-112 (303)
104 cd04776 HTH_GnyR Helix-Turn-He 22.1 84 0.0018 25.8 2.7 22 232-253 33-54 (118)
105 cd00427 Ribosomal_L29_HIP Ribo 22.0 95 0.0021 22.6 2.6 19 254-272 8-26 (57)
106 PF07558 Shugoshin_N: Shugoshi 21.9 46 0.001 23.7 1.0 20 254-273 16-35 (46)
107 PF09789 DUF2353: Uncharacteri 21.9 1.1E+02 0.0023 30.3 3.7 36 245-280 72-114 (319)
108 PF10186 Atg14: UV radiation r 21.4 1.3E+02 0.0029 26.9 4.0 31 249-279 81-111 (302)
109 PF01166 TSC22: TSC-22/dip/bun 21.4 57 0.0012 25.0 1.4 23 256-278 11-33 (59)
110 cd04770 HTH_HMRTR Helix-Turn-H 21.2 97 0.0021 25.0 2.8 21 233-253 36-56 (123)
111 PF13591 MerR_2: MerR HTH fami 21.0 81 0.0018 24.5 2.2 34 234-273 35-84 (84)
112 cd04787 HTH_HMRTR_unk Helix-Tu 20.6 96 0.0021 25.7 2.7 20 234-253 37-56 (133)
113 PF12644 DUF3782: Protein of u 20.3 1.1E+02 0.0024 22.1 2.7 30 252-281 8-38 (64)
114 cd01108 HTH_CueR Helix-Turn-He 20.2 82 0.0018 25.9 2.2 21 233-253 36-56 (127)
115 PRK12461 UDP-N-acetylglucosami 20.1 46 0.00099 30.8 0.8 35 232-269 196-234 (255)
116 PF04912 Dynamitin: Dynamitin 20.1 91 0.002 30.4 2.9 20 254-273 96-115 (388)
117 PRK00708 sec-independent trans 20.1 1.2E+02 0.0026 28.3 3.4 26 246-271 35-69 (209)
118 PF14389 Lzipper-MIP1: Leucine 20.0 1.3E+02 0.0027 24.0 3.2 18 254-271 10-27 (88)
No 1
>KOG3119|consensus
Probab=99.71 E-value=1.3e-16 Score=146.83 Aligned_cols=181 Identities=27% Similarity=0.262 Sum_probs=119.4
Q ss_pred cccccccccccCCccCCCcccCCCC---CcccchhhHHhhCCCCCCCCCCCCCCCCCCCCCCcCCCCCCccCcccccccc
Q psy17484 101 WSTVEAQAAFLGPNIWDKTLPYDSD---LKYVDLDEFLSDNGIPVDGNTSQTSTGGAPTPAANLTGGHTTTTLQNVTSTI 177 (283)
Q Consensus 101 ~~~~~~~SAfLgP~LWDKTlPyDGd---LeYMDLdEFL~ENGIp~s~~~s~~~~~~~p~~~a~~~~~~~~~s~~~~~~~~ 177 (283)
......+.++.+|.+|+.+++|+.+ ..|+|+++||++++|+.+..........++.+..............+.....
T Consensus 14 ~~a~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~~~~sa~~~~~~~p~~~~ 93 (269)
T KOG3119|consen 14 LSAQLGQRARPLPPVFGPERELDLDAGLEALQDLDVGLSNVDLPDAEHQPSNILLDQPGLSLEERHSALPSSLFNPSLKS 93 (269)
T ss_pred ccccccccccCCCCCCcccccccccccchhcccccccccccCCcccccccccccccCCCcccccccccccccccCccccc
Confidence 3356789999999999999999987 4799999999999999742111111111111000000000000000000000
Q ss_pred cCC-CCC---C--CC----CCc---cccccCCCCCCC--CCCCCCCcCCCCCCCCccccCCCCCCCCCCCCCCCCccccC
Q psy17484 178 SGR-LSP---C--GS----SQA---SVMTKRERSPSP--SEPMSPLTISPPSPADSTLSFTSSTRDFDPRSRTFSDEELK 242 (283)
Q Consensus 178 s~~-~~~---~--~~----~~~---~~~~~~~~tPSP--~~~i~pd~i~~PDPaDLaLSSvPG~E~FDPRkhkFSEEELK 242 (283)
... .+. . .. ... ..-...+.+++| .+++.+...+.++++++..|..++++.|+|++++|+...+|
T Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~s~~~~~ 173 (269)
T KOG3119|consen 94 SPFGPSELAEVTRTSESRPGPRAPRSTDLASRATPSPVPPDTLQPLVGYEPDPSDLAASSSPSPSSPDPSKPKSSGAKLK 173 (269)
T ss_pred ccCCccccccccCcccccccccccccccccccCCCCCCChhhccccccCCCCccccccccCCCCCCCCCCCCCCcccccC
Confidence 000 000 0 00 000 000112234444 46666776667999999999999999999999999999999
Q ss_pred Ccchhhhhhhh----------------------------------------------hhHHHHHHHHHHHHHHHHHHHHh
Q psy17484 243 PQPMVKKSRKQ----------------------------------------------NMGLRQEMERLKKENLSLRDKLS 276 (283)
Q Consensus 243 PQPMIKKARKv----------------------------------------------NaaLRqEVa~LRKElgr~rniLs 276 (283)
+|.++||++|+ |.+||++|.+|++||..||+++.
T Consensus 174 ~~~~~~K~~~~~~~~~~~~~~y~err~rNN~A~~kSR~~~k~~~~e~~~r~~~leken~~lr~~v~~l~~el~~~~~~~~ 253 (269)
T KOG3119|consen 174 PQSTARKKSKLSSPVEKKDPEYKERRRRNNEAVRKSRDKRKQKEDEMAHRVAELEKENEALRTQVEQLKKELATLRRLFL 253 (269)
T ss_pred CccchhhhccCCCchhcCCHHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999998877 99999999999999999999999
Q ss_pred hhhcc
Q psy17484 277 KFTDL 281 (283)
Q Consensus 277 KYE~~ 281 (283)
.|.+.
T Consensus 254 ~~~~~ 258 (269)
T KOG3119|consen 254 QLPKP 258 (269)
T ss_pred hhccc
Confidence 98764
No 2
>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=91.65 E-value=0.22 Score=36.26 Aligned_cols=28 Identities=25% Similarity=0.362 Sum_probs=25.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhccc
Q psy17484 255 MGLRQEMERLKKENLSLRDKLSKFTDLL 282 (283)
Q Consensus 255 aaLRqEVa~LRKElgr~rniLsKYE~~~ 282 (283)
+||||-|..|..++.++.+.+|+|..+.
T Consensus 2 ~aLrqQv~aL~~qv~~Lq~~fs~yKKa~ 29 (46)
T PF09006_consen 2 NALRQQVEALQGQVQRLQAAFSQYKKAE 29 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5899999999999999999999998763
No 3
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=84.41 E-value=1.9 Score=32.35 Aligned_cols=25 Identities=36% Similarity=0.500 Sum_probs=24.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhh
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKF 278 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKY 278 (283)
.++|-+|+..||+++..+|++|..|
T Consensus 35 R~~l~~e~~~L~~qN~eLr~lLkqY 59 (60)
T PF14775_consen 35 RAALIQEKESLEQQNEELRSLLKQY 59 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 8899999999999999999999988
No 4
>smart00338 BRLZ basic region leucin zipper.
Probab=82.57 E-value=2.1 Score=31.42 Aligned_cols=23 Identities=39% Similarity=0.628 Sum_probs=21.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHh
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLS 276 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLs 276 (283)
|..|+.+|..|++|+..+++++.
T Consensus 42 n~~L~~~~~~l~~e~~~lk~~~~ 64 (65)
T smart00338 42 NERLKKEIERLRRELEKLKSELE 64 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 99999999999999999999875
No 5
>PF07407 Seadorna_VP6: Seadornavirus VP6 protein; InterPro: IPR009982 This family consists of several VP6 proteins from the Banna virus as well as a related protein VP5 from the Kadipiro virus. Members of this family are typically of around 420 residues in length. The function of this family is unknown.
Probab=80.26 E-value=1.7 Score=43.28 Aligned_cols=27 Identities=37% Similarity=0.537 Sum_probs=21.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKFTD 280 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKYE~ 280 (283)
|+|||||=+.||||+..+|..|.+-|+
T Consensus 34 ~~aLr~EN~~LKkEN~~Lk~eVerLE~ 60 (420)
T PF07407_consen 34 NFALRMENHSLKKENNDLKIEVERLEN 60 (420)
T ss_pred hhhHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 778888888888888888887777665
No 6
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=77.67 E-value=2.8 Score=33.80 Aligned_cols=26 Identities=42% Similarity=0.592 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcc
Q psy17484 256 GLRQEMERLKKENLSLRDKLSKFTDL 281 (283)
Q Consensus 256 aLRqEVa~LRKElgr~rniLsKYE~~ 281 (283)
-|=+|+.+||+|+.++++.|++|+..
T Consensus 75 ~LLd~i~~Lr~el~~L~~~l~~~~~~ 100 (101)
T PRK10265 75 TLLDEIAHLKQENRLLRQRLSRFVAH 100 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 36789999999999999999999863
No 7
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=75.72 E-value=4.9 Score=31.38 Aligned_cols=34 Identities=26% Similarity=0.363 Sum_probs=28.8
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy17484 247 VKKSRKQNMGLRQEMERLKKENLSLRDKLSKFTD 280 (283)
Q Consensus 247 IKKARKvNaaLRqEVa~LRKElgr~rniLsKYE~ 280 (283)
++.+-|-|.-|+.||+.||+|+..++.-|.+-+.
T Consensus 38 ~~~~~keNieLKve~~~L~~el~~~~~~l~~a~~ 71 (75)
T PF07989_consen 38 IEELLKENIELKVEVESLKRELQEKKKLLKEAEK 71 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566677999999999999999999998876554
No 8
>cd00068 GGL G protein gamma subunit-like motifs, the alpha-helical G-gamma chain dimerizes with the G-beta propeller subunit as part of the heterotrimeric G-protein complex; involved in signal transduction via G-protein-coupled receptors
Probab=75.07 E-value=2.1 Score=31.47 Aligned_cols=22 Identities=45% Similarity=0.516 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q psy17484 256 GLRQEMERLKKENLSLRDKLSK 277 (283)
Q Consensus 256 aLRqEVa~LRKElgr~rniLsK 277 (283)
.+|+||..||+|+++.|-.+|+
T Consensus 3 ~~~~~veqLr~el~~~RikvS~ 24 (57)
T cd00068 3 QLKKEVEQLRKELSRERLKVSK 24 (57)
T ss_pred HHHHHHHHHHHHHCCchhhHHH
Confidence 5899999999999998877775
No 9
>smart00224 GGL G protein gamma subunit-like motifs.
Probab=73.88 E-value=1.9 Score=32.32 Aligned_cols=22 Identities=50% Similarity=0.549 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q psy17484 256 GLRQEMERLKKENLSLRDKLSK 277 (283)
Q Consensus 256 aLRqEVa~LRKElgr~rniLsK 277 (283)
.+|+||..||+|++|-|-.+|+
T Consensus 3 ~~~~~ve~Lr~el~~~RikvS~ 24 (63)
T smart00224 3 QLRKEVEQLRKELSRERIKVSK 24 (63)
T ss_pred HHHHHHHHHHHHHCCceehHHH
Confidence 6899999999999998877665
No 10
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=70.43 E-value=6.1 Score=36.22 Aligned_cols=21 Identities=24% Similarity=0.324 Sum_probs=12.8
Q ss_pred hhhhhhhHHHHHHHHHHHHHH
Q psy17484 249 KSRKQNMGLRQEMERLKKENL 269 (283)
Q Consensus 249 KARKvNaaLRqEVa~LRKElg 269 (283)
+.++-|..||+|+++|+.++.
T Consensus 73 ~l~~en~~L~~e~~~l~~~~~ 93 (276)
T PRK13922 73 DLREENEELKKELLELESRLQ 93 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334447777777766655544
No 11
>KOG4196|consensus
Probab=70.13 E-value=5.8 Score=34.64 Aligned_cols=25 Identities=40% Similarity=0.659 Sum_probs=20.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhh
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKF 278 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKY 278 (283)
|+-|+|||..||.|+.+++--+.-|
T Consensus 83 k~~L~qqv~~L~~e~s~~~~E~da~ 107 (135)
T KOG4196|consen 83 KAELQQQVEKLKEENSRLRRELDAY 107 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999998887655433
No 12
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=69.86 E-value=6.5 Score=28.07 Aligned_cols=23 Identities=35% Similarity=0.508 Sum_probs=20.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHh
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLS 276 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLs 276 (283)
|.+|.+|+..||.|+..+++.|.
T Consensus 21 ~~~L~~E~~~L~aev~~L~~kl~ 43 (45)
T PF02183_consen 21 YDSLKKENEKLRAEVQELKEKLQ 43 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Confidence 88999999999999999998874
No 13
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=69.84 E-value=7 Score=30.36 Aligned_cols=27 Identities=41% Similarity=0.559 Sum_probs=14.4
Q ss_pred hhHHHHHHHHHHHH----HHHHHHHHhhhhc
Q psy17484 254 NMGLRQEMERLKKE----NLSLRDKLSKFTD 280 (283)
Q Consensus 254 NaaLRqEVa~LRKE----lgr~rniLsKYE~ 280 (283)
|..|++|...||+| -.|++.+|.|.+.
T Consensus 41 ~~~L~~en~~L~~e~~~~~~rl~~LL~kl~~ 71 (72)
T PF06005_consen 41 NEELKEENEQLKQERNAWQERLRSLLGKLEE 71 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 44445555555544 3566666666554
No 14
>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=64.40 E-value=12 Score=28.96 Aligned_cols=22 Identities=27% Similarity=0.270 Sum_probs=19.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLRDKL 275 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniL 275 (283)
|+.||++++.++.|-.+++...
T Consensus 23 N~~Lr~q~~~~~~ER~~L~ekn 44 (65)
T TIGR02449 23 NRLLRAQEKTWREERAQLLEKN 44 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999988876654
No 15
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=60.38 E-value=16 Score=29.81 Aligned_cols=34 Identities=21% Similarity=0.258 Sum_probs=26.0
Q ss_pred CcchhhhhhhhhhHHHHHHHHHHHHHHHHHHHHh
Q psy17484 243 PQPMVKKSRKQNMGLRQEMERLKKENLSLRDKLS 276 (283)
Q Consensus 243 PQPMIKKARKvNaaLRqEVa~LRKElgr~rniLs 276 (283)
+...++..++-|..||+||++|+.|+.-+|+.+.
T Consensus 69 ~~~~~~~~~~ei~~L~~el~~L~~E~diLKKa~~ 102 (121)
T PRK09413 69 PASELAAAMKQIKELQRLLGKKTMENELLKEAVE 102 (121)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344566667799999999999999888777653
No 16
>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=58.85 E-value=19 Score=26.36 Aligned_cols=21 Identities=48% Similarity=0.650 Sum_probs=15.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLRDK 274 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rni 274 (283)
|..|+.++..|++|+..+++.
T Consensus 42 n~~L~~~~~~L~~~~~~L~~e 62 (64)
T PF00170_consen 42 NEELKKELEQLKKEIQSLKSE 62 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 777777777777777777654
No 17
>KOG4119|consensus
Probab=58.74 E-value=11 Score=29.71 Aligned_cols=29 Identities=34% Similarity=0.300 Sum_probs=23.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhhccc
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKFTDLL 282 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKYE~~~ 282 (283)
|..+|.+|..||.|++..|-.+|+-.+.|
T Consensus 9 ~~q~k~~VeqLk~e~~~~R~~vS~a~~el 37 (71)
T KOG4119|consen 9 KPQMKKEVEQLKLEANIERIKVSKAAAEL 37 (71)
T ss_pred hHHHHHHHHHHHHHHHhhHhhHHHHHHHH
Confidence 46789999999999999888888765443
No 18
>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=58.12 E-value=19 Score=28.18 Aligned_cols=25 Identities=28% Similarity=0.433 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhcc
Q psy17484 257 LRQEMERLKKENLSLRDKLSKFTDL 281 (283)
Q Consensus 257 LRqEVa~LRKElgr~rniLsKYE~~ 281 (283)
--+|++.||+++.+-|.+|.||...
T Consensus 57 q~~~i~~Le~~i~~k~~~L~~~~~~ 81 (83)
T PF07544_consen 57 QEEEIEELEEQIRKKREVLQKFKER 81 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4568999999999999999999754
No 19
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=57.12 E-value=14 Score=34.91 Aligned_cols=23 Identities=48% Similarity=0.667 Sum_probs=16.4
Q ss_pred hhHHHHHHHHH-----------HHHHHHHHHHHh
Q psy17484 254 NMGLRQEMERL-----------KKENLSLRDKLS 276 (283)
Q Consensus 254 NaaLRqEVa~L-----------RKElgr~rniLs 276 (283)
|..||+|+++| ++||.|+|+.|.
T Consensus 75 N~~Lr~e~~~l~~~~~~~~~~l~~EN~rLr~LL~ 108 (283)
T TIGR00219 75 NYKLRQELLKKNQQLEILTQNLKQENVRLRELLN 108 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 88888887654 666777777654
No 20
>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=56.90 E-value=18 Score=27.53 Aligned_cols=22 Identities=59% Similarity=0.696 Sum_probs=18.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHH
Q psy17484 252 KQNMGLRQEMERLKKENLSLRD 273 (283)
Q Consensus 252 KvNaaLRqEVa~LRKElgr~rn 273 (283)
+-|..|-+||..|++|+..+|.
T Consensus 39 ~rn~eL~~ei~~L~~e~ee~r~ 60 (61)
T PF08826_consen 39 KRNRELEQEIERLKKEMEELRS 60 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHhhc
Confidence 3399999999999999988764
No 21
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=55.44 E-value=16 Score=26.10 Aligned_cols=18 Identities=33% Similarity=0.602 Sum_probs=13.7
Q ss_pred HHHHHH-HHHHHHHHHHHH
Q psy17484 256 GLRQEM-ERLKKENLSLRD 273 (283)
Q Consensus 256 aLRqEV-a~LRKElgr~rn 273 (283)
+|+||+ .++|||+.+.|+
T Consensus 7 ~~KqEIL~EvrkEl~K~K~ 25 (40)
T PF08776_consen 7 RLKQEILEEVRKELQKVKE 25 (40)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 567775 578888888876
No 22
>PRK14127 cell division protein GpsB; Provisional
Probab=54.39 E-value=15 Score=30.77 Aligned_cols=27 Identities=30% Similarity=0.190 Sum_probs=21.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKFTD 280 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKYE~ 280 (283)
|..|+.|++.|++++..++..++.|+.
T Consensus 46 ~~~Lk~e~~~l~~~l~e~~~~~~~~~~ 72 (109)
T PRK14127 46 IEELQQENARLKAQVDELTKQVSVGAS 72 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccccc
Confidence 788888888888888888888777754
No 23
>cd01111 HTH_MerD Helix-Turn-Helix DNA binding domain of the MerD transcription regulator. Helix-turn-helix (HTH) transcription regulator MerD. The putative secondary regulator of mercury resistance (mer) operons, MerD, has been shown to down-regulate the expression of this operon in gram-negative bacteria. It binds to the same operator DNA as MerR that activates transcription of the operon in the presence of mercury ions. The MerD protein shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily, which promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are conserved and contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules such as metal ions, drugs,
Probab=54.04 E-value=18 Score=29.28 Aligned_cols=46 Identities=22% Similarity=0.227 Sum_probs=36.1
Q ss_pred CCCCCCccccCCcchhhhhhhh-------------------------hhHHHHHHHHHHHHHHHHHHHHhh
Q psy17484 232 RSRTFSDEELKPQPMVKKSRKQ-------------------------NMGLRQEMERLKKENLSLRDKLSK 277 (283)
Q Consensus 232 RkhkFSEEELKPQPMIKKARKv-------------------------NaaLRqEVa~LRKElgr~rniLsK 277 (283)
..|.|++++|.---+|+.+|.. ...+++++++.+++|.+++..|.+
T Consensus 35 g~R~Y~~~~l~~l~~I~~lr~~G~~l~~I~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~l~~~L~~ 105 (107)
T cd01111 35 GYGLFDDCALQRLRFVRAAFEAGIGLDELARLCRALDAGDGKQPEACLAQLRQKIEVRRAALNALTTQLAE 105 (107)
T ss_pred CCeecCHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566899999999999999876 556677777777888888877754
No 24
>KOG4196|consensus
Probab=53.16 E-value=12 Score=32.70 Aligned_cols=25 Identities=28% Similarity=0.422 Sum_probs=20.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhhcc
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKFTDL 281 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKYE~~ 281 (283)
=-.||+|++.||.|+.-||++ ||++
T Consensus 90 v~~L~~e~s~~~~E~da~k~k---~e~l 114 (135)
T KOG4196|consen 90 VEKLKEENSRLRRELDAYKSK---YEAL 114 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHH---HHHH
Confidence 357899999999999988876 6654
No 25
>cd04765 HTH_MlrA-like_sg2 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=52.39 E-value=9 Score=30.66 Aligned_cols=43 Identities=16% Similarity=0.324 Sum_probs=34.3
Q ss_pred CCCCCCccccCCcchhhhh-hhh--------------------hhHHHHHHHHHHHHHHHHHHH
Q psy17484 232 RSRTFSDEELKPQPMVKKS-RKQ--------------------NMGLRQEMERLKKENLSLRDK 274 (283)
Q Consensus 232 RkhkFSEEELKPQPMIKKA-RKv--------------------NaaLRqEVa~LRKElgr~rni 274 (283)
..|.|+++++.---.||.. |+. =+++++++-++|+|+..+|.-
T Consensus 35 g~R~Yt~~di~~l~~I~~llr~~G~~l~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 98 (99)
T cd04765 35 GRRYYRPKDVELLLLIKHLLYEKGYTIEGAKQALKEDGAAAIREEEAEERLPSIRAELLDLRDQ 98 (99)
T ss_pred CCeeeCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHhc
Confidence 4567999999988888874 543 356999999999999998863
No 26
>PRK03100 sec-independent translocase; Provisional
Probab=51.06 E-value=20 Score=31.19 Aligned_cols=28 Identities=21% Similarity=0.311 Sum_probs=18.9
Q ss_pred hhhhhhhh--------hhHHHHHHHHHHHHHHHHHH
Q psy17484 246 MVKKSRKQ--------NMGLRQEMERLKKENLSLRD 273 (283)
Q Consensus 246 MIKKARKv--------NaaLRqEVa~LRKElgr~rn 273 (283)
+||++|+. +..|.-|+.+|||++..+++
T Consensus 36 ~vr~~R~~~~~~~~~~~~elg~e~~dlrk~l~el~~ 71 (136)
T PRK03100 36 ALRQARDYASGATSQLREELGPEFDDLRKPLGELQK 71 (136)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence 56777776 34444577899997766554
No 27
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=50.06 E-value=17 Score=27.94 Aligned_cols=20 Identities=45% Similarity=0.494 Sum_probs=17.3
Q ss_pred hhHHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLRD 273 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rn 273 (283)
|.-|+.||..|||||..|+.
T Consensus 49 ~~~Lk~E~e~L~~el~~~r~ 68 (69)
T PF14197_consen 49 NNKLKEENEALRKELEELRA 68 (69)
T ss_pred HHHHHHHHHHHHHHHHHhhc
Confidence 88899999999999888764
No 28
>smart00340 HALZ homeobox associated leucin zipper.
Probab=49.38 E-value=13 Score=26.97 Aligned_cols=12 Identities=33% Similarity=0.614 Sum_probs=9.3
Q ss_pred hhHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLK 265 (283)
Q Consensus 254 NaaLRqEVa~LR 265 (283)
|..|+.||++||
T Consensus 21 NrRL~ke~~eLr 32 (44)
T smart00340 21 NRRLQKEVQELR 32 (44)
T ss_pred HHHHHHHHHHHH
Confidence 777777777776
No 29
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=48.48 E-value=24 Score=32.37 Aligned_cols=27 Identities=30% Similarity=0.501 Sum_probs=14.1
Q ss_pred hhhhhhHHHHHHH---HHHHHHHHHHHHHh
Q psy17484 250 SRKQNMGLRQEME---RLKKENLSLRDKLS 276 (283)
Q Consensus 250 ARKvNaaLRqEVa---~LRKElgr~rniLs 276 (283)
-|+.|+.|++|++ +|++|+.++|..|.
T Consensus 81 L~~e~~~l~~~~~~~~~l~~en~~L~~lL~ 110 (276)
T PRK13922 81 LKKELLELESRLQELEQLEAENARLRELLN 110 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3444555555555 44555555555543
No 30
>PF00631 G-gamma: GGL domain; InterPro: IPR015898 This entry represents the G protein gamma subunit and the GGL (G protein gamma-like) domain, which are related in sequence and are comprised of an extended alpha-helical polypeptide. The G protein gamma subunit forms a stable dimer with the beta subunit, but it does not make any contact with the alpha subunit, which contacts the opposite face of the beta subunit. The GGL domain is found in several RGS (regulators of G protein signaling) proteins. GGL domains can interact with beta subunits to form novel dimers that prevent gamma subunit binding, and may prevent heterotrimer formation by inhibiting alpha subunit binding. The interaction between G protein beta-5 neuro-specific isoforms and RGS GGL domains may represent a general mode of binding between beta-propeller proteins and their partners [].; GO: 0004871 signal transducer activity, 0007186 G-protein coupled receptor protein signaling pathway, 0005834 heterotrimeric G-protein complex; PDB: 3PSC_G 3SN6_G 1OMW_G 2BCJ_G 1GG2_G 3PVW_G 3PVU_G 3AH8_G 3CIK_G 1GP2_G ....
Probab=47.32 E-value=14 Score=27.68 Aligned_cols=23 Identities=39% Similarity=0.432 Sum_probs=14.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhh
Q psy17484 255 MGLRQEMERLKKENLSLRDKLSK 277 (283)
Q Consensus 255 aaLRqEVa~LRKElgr~rniLsK 277 (283)
.+|++||..||+|+.+-|-.+|+
T Consensus 5 ~~l~~ei~~L~~el~~~r~~vS~ 27 (68)
T PF00631_consen 5 DQLKREIEQLRQELERERIKVSK 27 (68)
T ss_dssp HHHHHHHHHHHHHHTS----HHH
T ss_pred HHHHHHHHHHHHHHcccceeHHH
Confidence 47888999999998775544443
No 31
>KOG4378|consensus
Probab=46.84 E-value=14 Score=38.88 Aligned_cols=20 Identities=40% Similarity=0.499 Sum_probs=16.2
Q ss_pred hhHHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLRD 273 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rn 273 (283)
|-+|..|+.-||+|+.++|.
T Consensus 652 Ne~l~aelk~lreenq~lr~ 671 (673)
T KOG4378|consen 652 NEMLKAELKFLREENQTLRC 671 (673)
T ss_pred hHHHHHHHHHHHHhhhhhhc
Confidence 88888888888888887774
No 32
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is 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: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=46.79 E-value=23 Score=25.28 Aligned_cols=25 Identities=32% Similarity=0.559 Sum_probs=14.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhh
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKF 278 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKY 278 (283)
...|.++|.+|..|+..++.-+...
T Consensus 27 ~~~le~~~~~L~~en~~L~~~i~~L 51 (54)
T PF07716_consen 27 EEELEQEVQELEEENEQLRQEIAQL 51 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455566666666666665555544
No 33
>PF07407 Seadorna_VP6: Seadornavirus VP6 protein; InterPro: IPR009982 This family consists of several VP6 proteins from the Banna virus as well as a related protein VP5 from the Kadipiro virus. Members of this family are typically of around 420 residues in length. The function of this family is unknown.
Probab=45.47 E-value=20 Score=36.01 Aligned_cols=21 Identities=33% Similarity=0.389 Sum_probs=15.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLRDK 274 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rni 274 (283)
|.+||+|-.+||.|+.|+.+=
T Consensus 41 N~~LKkEN~~Lk~eVerLE~e 61 (420)
T PF07407_consen 41 NHSLKKENNDLKIEVERLENE 61 (420)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 788888888888887777653
No 34
>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=43.85 E-value=28 Score=22.12 Aligned_cols=18 Identities=22% Similarity=0.350 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy17484 256 GLRQEMERLKKENLSLRD 273 (283)
Q Consensus 256 aLRqEVa~LRKElgr~rn 273 (283)
.||..+.+|.++|..|+.
T Consensus 5 rlr~rI~dLer~L~~C~~ 22 (23)
T PF04508_consen 5 RLRNRISDLERQLSECRR 22 (23)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 688889999999998874
No 35
>KOG3119|consensus
Probab=43.08 E-value=10 Score=35.65 Aligned_cols=41 Identities=15% Similarity=0.062 Sum_probs=35.0
Q ss_pred hhhhhhhhcCccccccCCCCCcc---hhhh-hhhhhhccCCCCCC
Q psy17484 48 TVEAQAAFLGPNIWDKTLPYDSD---LKVM-LSPLVLSTGKTNCK 88 (283)
Q Consensus 48 ~~~~~sA~LgP~lWdKTlpy~gd---l~~~-l~~f~~enG~~~~~ 88 (283)
...++.++.+|.+|+.+++|+.+ ..|+ ++.|+..++++...
T Consensus 16 a~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 60 (269)
T KOG3119|consen 16 AQLGQRARPLPPVFGPERELDLDAGLEALQDLDVGLSNVDLPDAE 60 (269)
T ss_pred ccccccccCCCCCCcccccccccccchhcccccccccccCCcccc
Confidence 47889999999999999999987 4445 99999999988654
No 36
>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion
Probab=42.07 E-value=38 Score=30.37 Aligned_cols=27 Identities=33% Similarity=0.602 Sum_probs=17.1
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHh
Q psy17484 250 SRKQNMGLRQEMERLKKENLSLRDKLS 276 (283)
Q Consensus 250 ARKvNaaLRqEVa~LRKElgr~rniLs 276 (283)
|++.|.+|+.|+..|+.++.+++.-|.
T Consensus 93 ~~~~N~~L~~dl~klt~~~~~l~~eL~ 119 (182)
T PF15035_consen 93 ARKANEALQEDLQKLTQDWERLRDELE 119 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344477777777777666666665554
No 37
>PF11598 COMP: Cartilage oligomeric matrix protein; InterPro: IPR024665 Thrombospondins are adhesive glycoproteins that mediate cell-to-cell and cell-to-matrix interactions. Cartilage oligomeric matrix protein may play a role in the structural integrity of cartilage via its interaction with other extracellular matrix proteins such as collagen and fibronectin [, ]. Thrombospondin 3 and 4 and cartilage oligomeric matrix proteins contain a five-stranded coiled-coil domain represented by this entry. This domain has a binding site between two internal rings formed by Leu37 and Thr40 [].; PDB: 1MZ9_D 1FBM_A 1VDF_E.
Probab=41.80 E-value=40 Score=24.38 Aligned_cols=25 Identities=20% Similarity=0.267 Sum_probs=20.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhh
Q psy17484 255 MGLRQEMERLKKENLSLRDKLSKFT 279 (283)
Q Consensus 255 aaLRqEVa~LRKElgr~rniLsKYE 279 (283)
+-||++|.+-+||...+||.|..-+
T Consensus 18 ~elk~~l~~Q~kE~~~LRntI~eC~ 42 (45)
T PF11598_consen 18 QELKELLRQQIKETRFLRNTIMECQ 42 (45)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHT-T
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3478999999999999999987543
No 38
>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=41.64 E-value=32 Score=25.57 Aligned_cols=25 Identities=32% Similarity=0.494 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhccc
Q psy17484 258 RQEMERLKKENLSLRDKLSKFTDLL 282 (283)
Q Consensus 258 RqEVa~LRKElgr~rniLsKYE~~~ 282 (283)
-.|++.|.||+.++..-|.+++..|
T Consensus 3 ~~E~~rL~Kel~kl~~~i~~~~~kL 27 (66)
T PF10458_consen 3 EAEIERLEKELEKLEKEIERLEKKL 27 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577777777777777777666554
No 39
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=41.16 E-value=9.3 Score=34.19 Aligned_cols=22 Identities=32% Similarity=0.462 Sum_probs=0.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHh
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLS 276 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLs 276 (283)
+..||.|+-|||+|+ .++.++.
T Consensus 33 ~QRLkDE~RDLKqEl-~V~ek~~ 54 (166)
T PF04880_consen 33 VQRLKDELRDLKQEL-IVQEKLR 54 (166)
T ss_dssp H----------------------
T ss_pred HHHHHHHHHHHHHHH-HHHHHhh
Confidence 889999999999999 7777664
No 40
>PRK14127 cell division protein GpsB; Provisional
Probab=41.05 E-value=33 Score=28.80 Aligned_cols=28 Identities=25% Similarity=0.477 Sum_probs=24.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhhcc
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKFTDL 281 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKYE~~ 281 (283)
-.+|-.|+++|+.|+.+++..|..|+.-
T Consensus 39 ye~l~~e~~~Lk~e~~~l~~~l~e~~~~ 66 (109)
T PRK14127 39 YEAFQKEIEELQQENARLKAQVDELTKQ 66 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5678889999999999999999999864
No 41
>PF12808 Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2-binding region; InterPro: IPR024545 This domain occurs at the C terminus of microtubule organising proteins in both budding and fission fungi. In Schizosaccharomyces pombe it has been shown to interact with the Mto2p protein, an interaction which is critical for anchoring the cytokinetic actin ring to the medial region of the cell and for proper coordination of mitosis with cytokinesis [, ].
Probab=39.87 E-value=40 Score=25.07 Aligned_cols=25 Identities=28% Similarity=0.484 Sum_probs=22.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhh
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKF 278 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKY 278 (283)
+.+.++++.+|+.|+-.+|..|.+-
T Consensus 24 ~~~a~~rl~~l~~EN~~Lr~eL~~~ 48 (52)
T PF12808_consen 24 RSAARKRLSKLEGENRLLRAELERL 48 (52)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHH
Confidence 7888999999999999999988763
No 42
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=39.71 E-value=26 Score=27.07 Aligned_cols=45 Identities=20% Similarity=0.414 Sum_probs=34.6
Q ss_pred CCCCCccccCCcchhhhhhh-h---------hhHHHHHHHHHHHHHHHHHHHHhh
Q psy17484 233 SRTFSDEELKPQPMVKKSRK-Q---------NMGLRQEMERLKKENLSLRDKLSK 277 (283)
Q Consensus 233 khkFSEEELKPQPMIKKARK-v---------NaaLRqEVa~LRKElgr~rniLsK 277 (283)
.+.|+++++.---.|+..++ . -..|+.++..|++|+.++++.|.+
T Consensus 36 ~R~y~~~dv~~l~~i~~L~~d~g~~l~~i~~~l~l~~~~~~l~~~l~~l~~~~~~ 90 (91)
T cd04766 36 TRRYSERDIERLRRIQRLTQELGVNLAGVKRILELEEELAELRAELDELRARLRR 90 (91)
T ss_pred CeeECHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 46689999998888888877 3 344777888888888888877654
No 43
>PRK11239 hypothetical protein; Provisional
Probab=39.55 E-value=31 Score=32.32 Aligned_cols=26 Identities=23% Similarity=0.331 Sum_probs=15.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy17484 255 MGLRQEMERLKKENLSLRDKLSKFTD 280 (283)
Q Consensus 255 aaLRqEVa~LRKElgr~rniLsKYE~ 280 (283)
++|.++|++|+.|+..+|..|.+...
T Consensus 186 ~~Le~rv~~Le~eva~L~~~l~~l~~ 211 (215)
T PRK11239 186 GDLQARVEALEIEVAELKQRLDSLLA 211 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44666666666666666666555443
No 44
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=39.44 E-value=40 Score=28.34 Aligned_cols=25 Identities=24% Similarity=0.360 Sum_probs=22.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhh
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKF 278 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKY 278 (283)
...|++|+.+.|+||.+||.-|..|
T Consensus 27 q~~l~~eL~~~k~el~~yk~~V~~H 51 (128)
T PF06295_consen 27 QAKLEQELEQAKQELEQYKQEVNDH 51 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4789999999999999999988774
No 45
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=38.73 E-value=31 Score=24.98 Aligned_cols=21 Identities=38% Similarity=0.545 Sum_probs=13.1
Q ss_pred hhhhHHHHHHHHHHHHHHHHH
Q psy17484 252 KQNMGLRQEMERLKKENLSLR 272 (283)
Q Consensus 252 KvNaaLRqEVa~LRKElgr~r 272 (283)
+-+..+|.|+++++||+..+|
T Consensus 48 ~~~~~~~k~l~~le~e~~~lr 68 (68)
T PF06305_consen 48 RRIRRLRKELKKLEKELEQLR 68 (68)
T ss_pred HHHHHHHHHHHHHHHHHHhcC
Confidence 335666667777777766543
No 46
>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=37.69 E-value=31 Score=26.65 Aligned_cols=42 Identities=36% Similarity=0.501 Sum_probs=25.6
Q ss_pred CCccccCCcchhhhhhhhhh-------HHHHHHHHHHHHHHHHHHHHhh
Q psy17484 236 FSDEELKPQPMVKKSRKQNM-------GLRQEMERLKKENLSLRDKLSK 277 (283)
Q Consensus 236 FSEEELKPQPMIKKARKvNa-------aLRqEVa~LRKElgr~rniLsK 277 (283)
+|--||+--=.|||-|+.|. .|+..++++-+++..++..|+.
T Consensus 24 LSk~el~~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~~l~~ 72 (74)
T PF12329_consen 24 LSKKELKLNNTIKKLRAKIKELEKQIKELKKKLEELEKELESLEERLKR 72 (74)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 45567777778999888744 4444444445555555555543
No 47
>PRK00182 tatB sec-independent translocase; Provisional
Probab=36.66 E-value=45 Score=29.90 Aligned_cols=26 Identities=12% Similarity=0.239 Sum_probs=16.4
Q ss_pred hhhhhhhh--------hhHHHHHHHHHHHHHHHH
Q psy17484 246 MVKKSRKQ--------NMGLRQEMERLKKENLSL 271 (283)
Q Consensus 246 MIKKARKv--------NaaLRqEVa~LRKElgr~ 271 (283)
+||++|+. +.-|+-|+.+|||.+..+
T Consensus 36 ~ir~~R~~~~~~k~el~~Elg~e~~elrk~l~~l 69 (160)
T PRK00182 36 ALLAARTAINNAKQQLDGDFGEEFDEFRKPLNQI 69 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 56677765 344555667888876653
No 48
>PF11594 Med28: Mediator complex subunit 28; InterPro: IPR021640 Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species [],[]. It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function []. Subunit Med28 of the Mediator may function as a scaffolding protein within Mediator by maintaining the stability of a submodule within the head module, and components of this submodule act together in a gene-regulatory programme to suppress smooth muscle cell differentiation. Thus, mammalian Mediator subunit Med28 functions as a repressor of smooth muscle-cell differentiation, which could have implications for disorders associated with abnormalities in smooth muscle cell growth and differentiation, including atherosclerosis, asthma, hypertension, and smooth muscle tumours [].
Probab=36.00 E-value=42 Score=28.29 Aligned_cols=27 Identities=26% Similarity=0.308 Sum_probs=21.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKFTD 280 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKYE~ 280 (283)
-..|++|+.+||.||.|-...|.|+..
T Consensus 37 e~~lkEEi~eLK~ElqRKe~Ll~Kh~~ 63 (106)
T PF11594_consen 37 EQVLKEEINELKEELQRKEQLLQKHYE 63 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567899999999998887777777643
No 49
>PF11221 Med21: Subunit 21 of Mediator complex; InterPro: IPR021384 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. Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator []. ; PDB: 1YKE_B 1YKH_B.
Probab=34.95 E-value=68 Score=27.32 Aligned_cols=8 Identities=13% Similarity=0.621 Sum_probs=5.9
Q ss_pred hhhhhhhh
Q psy17484 246 MVKKSRKQ 253 (283)
Q Consensus 246 MIKKARKv 253 (283)
+|.|||.|
T Consensus 78 Ii~kakqI 85 (144)
T PF11221_consen 78 IIRKAKQI 85 (144)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 67777777
No 50
>COG3132 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.62 E-value=35 Score=31.73 Aligned_cols=17 Identities=29% Similarity=0.216 Sum_probs=10.8
Q ss_pred hhHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLS 270 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr 270 (283)
=+||+||||+||.-|..
T Consensus 194 v~aLe~eva~L~~rld~ 210 (215)
T COG3132 194 VEALEQEVAELRARLDS 210 (215)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 35677777777665544
No 51
>KOG3156|consensus
Probab=34.40 E-value=60 Score=30.57 Aligned_cols=25 Identities=32% Similarity=0.392 Sum_probs=20.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhh
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKF 278 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKY 278 (283)
+++.|+|.+.||+|+.++||=|.|-
T Consensus 111 ~S~e~sEF~~lr~e~EklkndlEk~ 135 (220)
T KOG3156|consen 111 VSIERSEFANLRAENEKLKNDLEKL 135 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8888888888888888888877653
No 52
>KOG4010|consensus
Probab=33.73 E-value=44 Score=31.12 Aligned_cols=25 Identities=28% Similarity=0.457 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhc
Q psy17484 256 GLRQEMERLKKENLSLRDKLSKFTD 280 (283)
Q Consensus 256 aLRqEVa~LRKElgr~rniLsKYE~ 280 (283)
-||+|++.+-.|+..+|.+|+--|.
T Consensus 48 elr~EL~kvEeEI~TLrqVLaAKer 72 (208)
T KOG4010|consen 48 ELRTELAKVEEEIVTLRQVLAAKER 72 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7999999999999999999986553
No 53
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=33.52 E-value=47 Score=25.58 Aligned_cols=26 Identities=27% Similarity=0.124 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcc
Q psy17484 256 GLRQEMERLKKENLSLRDKLSKFTDL 281 (283)
Q Consensus 256 aLRqEVa~LRKElgr~rniLsKYE~~ 281 (283)
+|.+||+.||..|.++-..+++|+..
T Consensus 2 ~Lea~~~~Lr~rLd~~~rk~~~~~~~ 27 (69)
T PF14197_consen 2 KLEAEIATLRNRLDSLTRKNSVHEIE 27 (69)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 68899999999999999999998864
No 54
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.44 E-value=71 Score=25.62 Aligned_cols=28 Identities=36% Similarity=0.487 Sum_probs=20.4
Q ss_pred hhHHHHHHHHHHHH----HHHHHHHHhhhhcc
Q psy17484 254 NMGLRQEMERLKKE----NLSLRDKLSKFTDL 281 (283)
Q Consensus 254 NaaLRqEVa~LRKE----lgr~rniLsKYE~~ 281 (283)
+-||++|-..|++| -.|+|..|.|.+.|
T Consensus 48 reaL~~eneqlk~e~~~WQerlrsLLGkme~V 79 (79)
T COG3074 48 REALERENEQLKEEQNGWQERLRALLGKMEEV 79 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhccC
Confidence 56677777777777 35788888888765
No 55
>PRK14872 rod shape-determining protein MreC; Provisional
Probab=33.12 E-value=47 Score=32.79 Aligned_cols=21 Identities=19% Similarity=0.259 Sum_probs=15.3
Q ss_pred hhhhHHHHHHHHHHHHHHHHH
Q psy17484 252 KQNMGLRQEMERLKKENLSLR 272 (283)
Q Consensus 252 KvNaaLRqEVa~LRKElgr~r 272 (283)
+.|..||+|+++|+.++.++.
T Consensus 64 ~EN~~Lk~Ena~L~~~l~~~e 84 (337)
T PRK14872 64 TENFLLKERIALLEERLKSYE 84 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 338888888888866666544
No 56
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=33.09 E-value=69 Score=24.90 Aligned_cols=14 Identities=36% Similarity=0.278 Sum_probs=9.3
Q ss_pred hhHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKE 267 (283)
Q Consensus 254 NaaLRqEVa~LRKE 267 (283)
.++|+.||++||.+
T Consensus 20 i~~Lq~e~eeLke~ 33 (72)
T PF06005_consen 20 IALLQMENEELKEK 33 (72)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 56667777777664
No 57
>PF15483 DUF4641: Domain of unknown function (DUF4641)
Probab=33.04 E-value=61 Score=33.29 Aligned_cols=65 Identities=25% Similarity=0.324 Sum_probs=44.6
Q ss_pred CCCCccccCCCCCCCCCCCCCCCCccccCCcchhhhhhhh----------hhHHHHHHHHHHHHHHHHHHHHhhhh
Q psy17484 214 SPADSTLSFTSSTRDFDPRSRTFSDEELKPQPMVKKSRKQ----------NMGLRQEMERLKKENLSLRDKLSKFT 279 (283)
Q Consensus 214 DPaDLaLSSvPG~E~FDPRkhkFSEEELKPQPMIKKARKv----------NaaLRqEVa~LRKElgr~rniLsKYE 279 (283)
+|...-.++.. |.--=||.+.+|=|.=-|-.-..-.|.. =.-|-.||.|||++|+.++....||+
T Consensus 371 vpgnsq~~alS-qg~~~pR~papSgDQeppv~pprperqQ~ppG~qGCpRC~~LQkEIedLreQLaamqsl~~kfq 445 (445)
T PF15483_consen 371 VPGNSQPSALS-QGGVMPRGPAPSGDQEPPVHPPRPERQQQPPGAQGCPRCLVLQKEIEDLREQLAAMQSLADKFQ 445 (445)
T ss_pred CCCCCcccccc-cccccCCCCCCCcccCCCCCCCCcccccCCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 55555555543 2234599999997643332222223543 77899999999999999999999985
No 58
>PF14182 YgaB: YgaB-like protein
Probab=32.21 E-value=61 Score=26.18 Aligned_cols=23 Identities=17% Similarity=0.325 Sum_probs=19.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHh
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLS 276 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLs 276 (283)
=.++|+|++.+|++|..+.++..
T Consensus 42 l~~i~~EI~~mkk~Lk~Iq~~Fe 64 (79)
T PF14182_consen 42 LHSIQEEISQMKKELKEIQRVFE 64 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45789999999999999887743
No 59
>PRK11239 hypothetical protein; Provisional
Probab=31.79 E-value=53 Score=30.78 Aligned_cols=22 Identities=32% Similarity=0.226 Sum_probs=19.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLRDKL 275 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniL 275 (283)
-++|++|||+||..+.++++-+
T Consensus 192 v~~Le~eva~L~~~l~~l~~~~ 213 (215)
T PRK11239 192 VEALEIEVAELKQRLDSLLAHL 213 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 6899999999999999988754
No 60
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=30.76 E-value=56 Score=26.42 Aligned_cols=22 Identities=14% Similarity=0.345 Sum_probs=18.5
Q ss_pred CCCCCCccccCCcchhhhhhhh
Q psy17484 232 RSRTFSDEELKPQPMVKKSRKQ 253 (283)
Q Consensus 232 RkhkFSEEELKPQPMIKKARKv 253 (283)
.-|.|+++++.---+|+..|+.
T Consensus 34 ~yR~Y~~~d~~~l~~I~~lr~~ 55 (116)
T cd04769 34 NYRVYDAQHVECLRFIKEARQL 55 (116)
T ss_pred CceeeCHHHHHHHHHHHHHHHc
Confidence 4567899999998999999877
No 61
>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=30.73 E-value=75 Score=23.20 Aligned_cols=21 Identities=43% Similarity=0.716 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q psy17484 256 GLRQEMERLKKENLSLRDKLS 276 (283)
Q Consensus 256 aLRqEVa~LRKElgr~rniLs 276 (283)
.|+.+++++++|+..++..+.
T Consensus 28 ~l~~~i~~l~~e~~~L~~ei~ 48 (80)
T PF04977_consen 28 ELQKEIEELKKENEELKEEIE 48 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444443333
No 62
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=30.18 E-value=54 Score=26.28 Aligned_cols=20 Identities=30% Similarity=0.481 Sum_probs=15.1
Q ss_pred CCCCccccCCcchhhhhhhh
Q psy17484 234 RTFSDEELKPQPMVKKSRKQ 253 (283)
Q Consensus 234 hkFSEEELKPQPMIKKARKv 253 (283)
|.|+++++.---+|+..|+.
T Consensus 37 R~Y~~~~l~~l~~I~~lr~~ 56 (113)
T cd01109 37 RDFTEEDLEWLEFIKCLRNT 56 (113)
T ss_pred ccCCHHHHHHHHHHHHHHHc
Confidence 45688888877888887766
No 63
>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=29.53 E-value=1.1e+02 Score=22.33 Aligned_cols=18 Identities=39% Similarity=0.339 Sum_probs=13.0
Q ss_pred hhHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSL 271 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~ 271 (283)
++.|++|..+|++|+.++
T Consensus 33 i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 33 IEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 677777777777777766
No 64
>PF05465 Halo_GVPC: Halobacterial gas vesicle protein C (GVPC) repeat; InterPro: IPR008639 This family consists of Halobacterium gas vesicle protein C sequences which are thought to confer stability to the gas vesicle membranes [,].; GO: 0031412 gas vesicle organization, 0031411 gas vesicle
Probab=29.53 E-value=89 Score=20.92 Aligned_cols=25 Identities=16% Similarity=0.324 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhc
Q psy17484 256 GLRQEMERLKKENLSLRDKLSKFTD 280 (283)
Q Consensus 256 aLRqEVa~LRKElgr~rniLsKYE~ 280 (283)
.|+.+++++|.|....+....-|..
T Consensus 3 ~l~a~I~~~r~~f~~~~~aF~aY~~ 27 (32)
T PF05465_consen 3 DLLAAIAEFREEFDDTQDAFEAYAD 27 (32)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788888888888888887777764
No 65
>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=29.29 E-value=80 Score=27.05 Aligned_cols=26 Identities=42% Similarity=0.585 Sum_probs=17.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhh
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKFT 279 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKYE 279 (283)
|.-|+.++++|++|+..+...|..+.
T Consensus 111 ~~el~~~i~~l~~e~~~l~~kL~~l~ 136 (169)
T PF07106_consen 111 NEELREEIEELEEEIEELEEKLEKLR 136 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66666677777777766666666554
No 66
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=29.11 E-value=76 Score=28.44 Aligned_cols=24 Identities=33% Similarity=0.472 Sum_probs=12.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhh
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSK 277 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsK 277 (283)
+..||+++.++|+++...|+.|.+
T Consensus 72 ~~~l~~~i~~~~~~i~~~r~~l~~ 95 (302)
T PF10186_consen 72 LERLRERIERLRKRIEQKRERLEE 95 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555555555555555554443
No 67
>KOG1319|consensus
Probab=29.04 E-value=43 Score=31.32 Aligned_cols=24 Identities=17% Similarity=0.364 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccc
Q psy17484 259 QEMERLKKENLSLRDKLSKFTDLL 282 (283)
Q Consensus 259 qEVa~LRKElgr~rniLsKYE~~~ 282 (283)
.||+.||||...+|=|-+.||..+
T Consensus 126 ~e~s~L~k~vtAL~iIk~~YEqM~ 149 (229)
T KOG1319|consen 126 EEVSTLRKDVTALKIIKVNYEQMV 149 (229)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 478889999999999999999865
No 68
>PRK00306 50S ribosomal protein L29; Reviewed
Probab=28.80 E-value=77 Score=23.75 Aligned_cols=19 Identities=37% Similarity=0.443 Sum_probs=13.0
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLR 272 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~r 272 (283)
..-|..++.+||+||-.+|
T Consensus 11 ~~eL~~~l~~lkkeL~~lR 29 (66)
T PRK00306 11 VEELNEKLLELKKELFNLR 29 (66)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5566777777777776666
No 69
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=28.77 E-value=46 Score=29.09 Aligned_cols=48 Identities=21% Similarity=0.331 Sum_probs=36.4
Q ss_pred CCCCccccCCcchhhhhhhh------------------hhHHHHHHHHHHHHHHHHHHHHhhhhcc
Q psy17484 234 RTFSDEELKPQPMVKKSRKQ------------------NMGLRQEMERLKKENLSLRDKLSKFTDL 281 (283)
Q Consensus 234 hkFSEEELKPQPMIKKARKv------------------NaaLRqEVa~LRKElgr~rniLsKYE~~ 281 (283)
|.|++++|.--=+|+..|.. ...|++.+++|++|+.+++.+....+.+
T Consensus 38 R~Y~~~dl~rL~~I~~lr~~G~sL~eI~~ll~~~~~~~~~~L~~~~~~l~~ei~~L~~~~~~l~~l 103 (172)
T cd04790 38 RLYGERDLERLEQICAYRSAGVSLEDIRSLLQQPGDDATDVLRRRLAELNREIQRLRQQQRAIATL 103 (172)
T ss_pred ccCCHHHHHHHHHHHHHHHcCCCHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55699999888889888876 3468888888888888777776655443
No 70
>PF10392 COG5: Golgi transport complex subunit 5; InterPro: IPR019465 The conserved oligomeric Golgi (COG) complex is a peripheral membrane complex involved in intra-Golgi protein trafficking. Subunit 5 is located in the smaller, B lobe, together with subunits 6-8, and has been shown to bind subunits 1 and 7 [].
Probab=28.75 E-value=88 Score=26.08 Aligned_cols=34 Identities=15% Similarity=0.291 Sum_probs=26.1
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHHHH-HHHhhhhcc
Q psy17484 248 KKSRKQNMGLRQEMERLKKENLSLR-DKLSKFTDL 281 (283)
Q Consensus 248 KKARKvNaaLRqEVa~LRKElgr~r-niLsKYE~~ 281 (283)
+.+..+..++|.-|..|..-..|+| .|+..|+.+
T Consensus 68 ~~~~~~l~~v~~~v~~L~~s~~RL~~eV~~Py~~~ 102 (132)
T PF10392_consen 68 EELESVLQAVRSSVESLQSSYERLRSEVIEPYEKI 102 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 4444558888999999999999988 577778764
No 71
>PRK14872 rod shape-determining protein MreC; Provisional
Probab=28.58 E-value=54 Score=32.37 Aligned_cols=27 Identities=22% Similarity=0.278 Sum_probs=20.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhcc
Q psy17484 255 MGLRQEMERLKKENLSLRDKLSKFTDL 281 (283)
Q Consensus 255 aaLRqEVa~LRKElgr~rniLsKYE~~ 281 (283)
..|++|-.+||+|+.++++.+.+|+.+
T Consensus 60 ~~L~~EN~~Lk~Ena~L~~~l~~~e~l 86 (337)
T PRK14872 60 LVLETENFLLKERIALLEERLKSYEEA 86 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457888888888888888888777743
No 72
>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=28.49 E-value=76 Score=25.08 Aligned_cols=28 Identities=25% Similarity=0.397 Sum_probs=21.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhhcc
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKFTDL 281 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKYE~~ 281 (283)
-..|+.|+.+|++++..+...+..++..
T Consensus 69 ~~~l~~e~~~lk~~i~~le~~~~~~e~~ 96 (108)
T PF02403_consen 69 AEELKAEVKELKEEIKELEEQLKELEEE 96 (108)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4578888888888888888877776643
No 73
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=27.91 E-value=79 Score=33.94 Aligned_cols=26 Identities=38% Similarity=0.616 Sum_probs=22.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhh
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKFT 279 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKYE 279 (283)
|..|+.|+.+|++|+..|++.|+.+.
T Consensus 438 ~~~L~~~~ee~k~eie~L~~~l~~~~ 463 (652)
T COG2433 438 NSELKRELEELKREIEKLESELERFR 463 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999998888887653
No 74
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=27.36 E-value=85 Score=25.71 Aligned_cols=20 Identities=25% Similarity=0.257 Sum_probs=12.0
Q ss_pred hhHHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLRD 273 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rn 273 (283)
|+.|++|.++|+.|+.++++
T Consensus 43 ~~~l~~~n~~L~~eI~~L~~ 62 (105)
T PRK00888 43 NAKLKARNDQLFAEIDDLKG 62 (105)
T ss_pred HHHHHHHHHHHHHHHHHhhC
Confidence 55666666666666665554
No 75
>TIGR00012 L29 ribosomal protein L29. called L29 in prokaryotic (50S) large subunits and L35 in eukaryotic (60S) large subunits.
Probab=27.14 E-value=66 Score=23.39 Aligned_cols=19 Identities=37% Similarity=0.560 Sum_probs=14.7
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLR 272 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~r 272 (283)
+.-|..+++++|+||-.+|
T Consensus 7 ~~EL~~~l~~lr~eLf~Lr 25 (55)
T TIGR00012 7 KEELAKKLDELKKELFELR 25 (55)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4557788888888888777
No 76
>PRK14549 50S ribosomal protein L29P; Provisional
Probab=27.11 E-value=85 Score=24.02 Aligned_cols=19 Identities=32% Similarity=0.281 Sum_probs=11.7
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLR 272 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~r 272 (283)
..-|..++.+||+||-.+|
T Consensus 14 ~~eL~~~l~elk~eLf~LR 32 (69)
T PRK14549 14 PEEREEKLEELKLELLKER 32 (69)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4556666666666666555
No 77
>PF13863 DUF4200: Domain of unknown function (DUF4200)
Probab=27.05 E-value=99 Score=24.82 Aligned_cols=27 Identities=26% Similarity=0.398 Sum_probs=13.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKFTD 280 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKYE~ 280 (283)
..-.-.|+..|+.+++.++..+++++.
T Consensus 76 ~~~k~~ei~~l~~~l~~l~~~~~k~e~ 102 (126)
T PF13863_consen 76 KEEKEAEIKKLKAELEELKSEISKLEE 102 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444555555555555555554443
No 78
>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=27.02 E-value=83 Score=26.96 Aligned_cols=26 Identities=31% Similarity=0.425 Sum_probs=11.2
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHHHH
Q psy17484 247 VKKSRKQNMGLRQEMERLKKENLSLR 272 (283)
Q Consensus 247 IKKARKvNaaLRqEVa~LRKElgr~r 272 (283)
|+.-+...+.|++|+..|+.||..++
T Consensus 81 i~~L~~el~~l~~~~k~l~~eL~~L~ 106 (169)
T PF07106_consen 81 IKELREELAELKKEVKSLEAELASLS 106 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33333334444444444444444433
No 79
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=27.02 E-value=36 Score=22.81 Aligned_cols=15 Identities=47% Similarity=0.860 Sum_probs=13.0
Q ss_pred cchhhHHhhCCCCCC
Q psy17484 129 VDLDEFLSDNGIPVD 143 (283)
Q Consensus 129 MDLdEFL~ENGIp~s 143 (283)
=||.+||.++||+.+
T Consensus 7 ~~L~~wL~~~gi~~~ 21 (38)
T PF10281_consen 7 SDLKSWLKSHGIPVP 21 (38)
T ss_pred HHHHHHHHHcCCCCC
Confidence 379999999999964
No 80
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=26.92 E-value=65 Score=26.29 Aligned_cols=30 Identities=17% Similarity=0.055 Sum_probs=20.4
Q ss_pred hhhhhhhhhHHHHHHHHHHHH--HHHHHHHHh
Q psy17484 247 VKKSRKQNMGLRQEMERLKKE--NLSLRDKLS 276 (283)
Q Consensus 247 IKKARKvNaaLRqEVa~LRKE--lgr~rniLs 276 (283)
|++-+|.+.-|+.|++=|+|- +.++|+.+.
T Consensus 80 i~~L~~el~~L~~E~diLKKa~~~~~~~~~~~ 111 (121)
T PRK09413 80 IKELQRLLGKKTMENELLKEAVEYGRAKKWIA 111 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhchhhhhh
Confidence 677777777777787777775 355665543
No 81
>cd04775 HTH_Cfa-like Helix-Turn-Helix DNA binding domain of Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulators; the HTH domain of Cfa, a cyclopropane fatty acid synthase, and other related methyltransferases, as well as, the N-terminal domain of a conserved, uncharacterized ~172 a.a. protein. Based on sequence similarity of the N-terminal domain, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimil
Probab=26.84 E-value=51 Score=26.17 Aligned_cols=50 Identities=18% Similarity=0.268 Sum_probs=37.5
Q ss_pred CCCCCccccCCcchhhhhhhh----------------hhHHHHHHHHHHHHHHHHHHHHhhhhccc
Q psy17484 233 SRTFSDEELKPQPMVKKSRKQ----------------NMGLRQEMERLKKENLSLRDKLSKFTDLL 282 (283)
Q Consensus 233 khkFSEEELKPQPMIKKARKv----------------NaaLRqEVa~LRKElgr~rniLsKYE~~~ 282 (283)
.|.|+++++.---+|+..|+. ...|.+-.++|++++.+++..+..-+.+|
T Consensus 36 ~R~Y~~~dl~~l~~I~~l~~~G~~l~ei~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~l 101 (102)
T cd04775 36 YRLYSEADLSRLEKIVFLQAGGLPLEEIAGCLAQPHVQAILEERLQSLNREIQRLRQQQQVLAAIL 101 (102)
T ss_pred CeeeCHHHHHHHHHHHHHHHCCCCHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 355799999888888888766 56677777888888888877777666554
No 82
>PRK00461 rpmC 50S ribosomal protein L29; Reviewed
Probab=26.81 E-value=82 Score=25.47 Aligned_cols=19 Identities=32% Similarity=0.300 Sum_probs=13.9
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLR 272 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~r 272 (283)
..-|..++.+||+||..+|
T Consensus 10 ~eEL~e~L~elkkELf~LR 28 (87)
T PRK00461 10 VEELEKLVIELKAELFTLR 28 (87)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5667777777777777776
No 83
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=26.76 E-value=1e+02 Score=27.74 Aligned_cols=23 Identities=43% Similarity=0.526 Sum_probs=11.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHh
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLS 276 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLs 276 (283)
|+.|++++..|.+|+.++...++
T Consensus 113 ~~~l~~~~e~Le~e~~~L~~~~~ 135 (161)
T TIGR02894 113 NESLQKRNEELEKELEKLRQRLS 135 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444455555555555544333
No 84
>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export [].
Probab=26.37 E-value=46 Score=26.63 Aligned_cols=14 Identities=36% Similarity=0.560 Sum_probs=10.7
Q ss_pred hhHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKE 267 (283)
Q Consensus 254 NaaLRqEVa~LRKE 267 (283)
|.+|-++|+++|+|
T Consensus 96 N~~L~~~i~~~r~e 109 (109)
T PF03980_consen 96 NEALAEEIQEQRKE 109 (109)
T ss_pred HHHHHHHHHHhhcC
Confidence 77788888777765
No 85
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=25.78 E-value=85 Score=25.69 Aligned_cols=25 Identities=20% Similarity=0.206 Sum_probs=14.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhh
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKF 278 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKY 278 (283)
-+++++|+++|++++.+++.-+.+.
T Consensus 36 ~~~~~~e~~~l~~~n~~L~~eI~~L 60 (105)
T PRK00888 36 VAAQQQTNAKLKARNDQLFAEIDDL 60 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455566666666666666655544
No 86
>PF09350 DUF1992: Domain of unknown function (DUF1992); InterPro: IPR018961 This entry represents a family of proteins that may have a role in protein folding or as a chaperone. DnaJ is a member of the J-protein family, which are defined by the presence of a J domain that can regulate the activity of 70kDa heat-shock proteins []. Some of the proteins in this entry contain a J domain.
Probab=25.55 E-value=51 Score=25.33 Aligned_cols=16 Identities=31% Similarity=0.457 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHH
Q psy17484 256 GLRQEMERLKKENLSL 271 (283)
Q Consensus 256 aLRqEVa~LRKElgr~ 271 (283)
.||+|+.+||+.|.+|
T Consensus 56 ~l~kei~~l~~~l~~~ 71 (71)
T PF09350_consen 56 ELRKEIEELREALAQC 71 (71)
T ss_pred HHHHHHHHHHHHHHhC
Confidence 5677777777776665
No 87
>PRK10093 primosomal replication protein N''; Provisional
Probab=25.41 E-value=67 Score=29.05 Aligned_cols=28 Identities=25% Similarity=0.332 Sum_probs=24.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhccc
Q psy17484 255 MGLRQEMERLKKENLSLRDKLSKFTDLL 282 (283)
Q Consensus 255 aaLRqEVa~LRKElgr~rniLsKYE~~~ 282 (283)
..|-+||+.+-.-|+|||.-|.|-|..+
T Consensus 139 q~lq~el~alegRL~RCrqAl~~IE~~I 166 (171)
T PRK10093 139 QTLHREVEAYEGRLARCRHALEKIENVL 166 (171)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4588999999999999999999988764
No 88
>PF07445 priB_priC: Primosomal replication protein priB and priC; InterPro: IPR010890 This family contains the bacterial primosomal replication proteins priB and priC (approximately 180 residues long). In Escherichia coli, these function in the assembly of the primosome [].
Probab=25.38 E-value=68 Score=28.33 Aligned_cols=29 Identities=21% Similarity=0.307 Sum_probs=24.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhhccc
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKFTDLL 282 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKYE~~~ 282 (283)
-..|.+|++.+..-|+|||.-|++-|..|
T Consensus 140 ~~~lq~ei~a~e~RL~RCr~Ai~~iE~~I 168 (173)
T PF07445_consen 140 QQQLQQEILALEQRLQRCRQAIEKIEEQI 168 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34688899999999999999999887654
No 89
>PF10384 Scm3: Centromere protein Scm3; InterPro: IPR018465 The centromere protein Scm3 is a non-histone component of centromeric chromatin that binds to CenH3-H4 histones, which are required for kinetochore assembly. Scm3 is required for Cse4 localisation and is required for its centromeric association [, ]. The histone H3 variant Cse4 replaces conventional histone H3 in centromeric chromatin and helps direct the assembly of the kinetochore. In addition, Scm3 has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for G2/M progression []. Scm3 is required to maintain kinetochore function throughout the cell cycle. Scm3 contains a nuclear export signal (NES). The N-terminal region of Scm3 is well conserved and functions as the CenH3-interacting domain, while the C-terminal region is variable in size and sometimes consists of DNA binding motifs [].; GO: 0005634 nucleus; PDB: 3R45_C 2YFV_C 2L5A_A.
Probab=25.29 E-value=87 Score=23.58 Aligned_cols=22 Identities=18% Similarity=0.348 Sum_probs=16.2
Q ss_pred HHHHHHHH-----HHHHHHHHhhhhcc
Q psy17484 260 EMERLKKE-----NLSLRDKLSKFTDL 281 (283)
Q Consensus 260 EVa~LRKE-----lgr~rniLsKYE~~ 281 (283)
||..+|++ ..+...|++||+..
T Consensus 2 ~l~~~~~~s~~r~k~~~e~I~~KY~~~ 28 (58)
T PF10384_consen 2 ELMQLRKQSDQRFKSRWESIIEKYGQP 28 (58)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCSG
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence 56666666 56778899999873
No 90
>PF09036 Bcr-Abl_Oligo: Bcr-Abl oncoprotein oligomerisation domain; InterPro: IPR015123 This entry represents the oligomerisation domain of the breakpoint cluster region oncoprotein Bcr, and the Bcr/Abl (Abelson-leukemia-virus) fusion protein created by a reciprocal (9;22) fusion []. Brc displays serine/threonine protein kinase activity (2.7.11.1 from EC), acting as a GTPase-activating protein for RAC1 and CDC42. Brc promotes the exchange of RAC or CDC42-bound GDP by GTP, thereby activating them []. The Bcr/Abl fusion protein loses some of the regulatory function of Bcr with regards to small Rho-like GTPases with negative consequences on cell motility, in particular on the capacity to adhere to endothelial cells []. The Bcr, Bcr/Abl oncoprotein oligomerisation domain consists of a short N-terminal helix (alpha-1), a flexible loop and a long C-terminal helix (alpha-2). Together these form an N-shaped structure, with the loop allowing the two helices to assume a parallel orientation. The monomeric domains associate into a dimer through the formation of an antiparallel coiled coil between the alpha-2 helices and domain swapping of two alpha-1 helices, where one alpha-1 helix swings back and packs against the alpha-2 helix from the second monomer. Two dimers then associate into a tetramer. The oligomerisation domain is essential for the oncogenicity of the Bcr-Abl protein []. ; GO: 0004674 protein serine/threonine kinase activity, 0005096 GTPase activator activity, 0006468 protein phosphorylation, 0007165 signal transduction; PDB: 1K1F_C.
Probab=25.10 E-value=61 Score=26.13 Aligned_cols=27 Identities=15% Similarity=0.299 Sum_probs=19.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhccc
Q psy17484 255 MGLRQEMERLKKENLSLRDKLSKFTDLL 282 (283)
Q Consensus 255 aaLRqEVa~LRKElgr~rniLsKYE~~~ 282 (283)
++|| -|-+|-+||.+||.-|-+-|.++
T Consensus 23 m~l~-svgd~e~eLerCK~sirrLeqev 49 (79)
T PF09036_consen 23 MELR-SVGDIEQELERCKASIRRLEQEV 49 (79)
T ss_dssp ---S-SHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHH-HhccHHHHHHHHHHHHHHHHHHH
Confidence 4566 47889999999999888877654
No 91
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=24.95 E-value=93 Score=28.02 Aligned_cols=34 Identities=29% Similarity=0.394 Sum_probs=22.1
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy17484 247 VKKSRKQNMGLRQEMERLKKENLSLRDKLSKFTD 280 (283)
Q Consensus 247 IKKARKvNaaLRqEVa~LRKElgr~rniLsKYE~ 280 (283)
.+..++-|.+|+.|+++|++++-.+.+-+.+.+.
T Consensus 99 ~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~ 132 (161)
T TIGR02894 99 DQALQKENERLKNQNESLQKRNEELEKELEKLRQ 132 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444777777777777777777776665543
No 92
>KOG0313|consensus
Probab=24.19 E-value=38 Score=34.42 Aligned_cols=25 Identities=40% Similarity=0.705 Sum_probs=20.7
Q ss_pred CcccCCC----CCcccchhhHHhhCCCCC
Q psy17484 118 KTLPYDS----DLKYVDLDEFLSDNGIPV 142 (283)
Q Consensus 118 KTlPyDG----dLeYMDLdEFL~ENGIp~ 142 (283)
|+.|||. +|=-|-|+|||.|+||-.
T Consensus 53 K~~pFDFLi~gelLRtsL~e~l~~kgiSs 81 (423)
T KOG0313|consen 53 KPVPFDFLIKGELLRTSLDEHLEEKGISS 81 (423)
T ss_pred CCCcceEEEcceeeeccHHHHHHHcCcCh
Confidence 6678883 466899999999999986
No 93
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=24.07 E-value=1.1e+02 Score=23.29 Aligned_cols=22 Identities=18% Similarity=0.111 Sum_probs=13.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHh
Q psy17484 255 MGLRQEMERLKKENLSLRDKLS 276 (283)
Q Consensus 255 aaLRqEVa~LRKElgr~rniLs 276 (283)
++|+.|++.+|.++.+-++..+
T Consensus 31 a~L~aEI~R~~~~~~~K~a~r~ 52 (59)
T PF06698_consen 31 ALLEAEIARLEAAIAKKSASRA 52 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5666677766666666555544
No 94
>TIGR02047 CadR-PbrR Cd(II)/Pb(II)-responsive transcriptional regulator. This model represents the cadmium(II) and/or lead(II) responsive transcriptional activator of the proteobacterial metal efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(6-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=23.97 E-value=69 Score=26.49 Aligned_cols=21 Identities=10% Similarity=0.294 Sum_probs=17.3
Q ss_pred CCCCCccccCCcchhhhhhhh
Q psy17484 233 SRTFSDEELKPQPMVKKSRKQ 253 (283)
Q Consensus 233 khkFSEEELKPQPMIKKARKv 253 (283)
.|.|++++|.--=+|+..|+.
T Consensus 36 yR~Y~~~~l~~l~~I~~lr~l 56 (127)
T TIGR02047 36 YRVYTVGHVERLAFIRNCRTL 56 (127)
T ss_pred CCcCCHHHHHHHHHHHHHHHc
Confidence 456799999888899988876
No 95
>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=23.94 E-value=77 Score=26.30 Aligned_cols=20 Identities=35% Similarity=0.376 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLRD 273 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rn 273 (283)
|++||-|.+.||+-|.....
T Consensus 38 N~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 38 NARLRIENEHLRERLEELEQ 57 (107)
T ss_pred HHHHHHHHHHHHHHHHHHhc
No 96
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=23.18 E-value=79 Score=26.56 Aligned_cols=18 Identities=33% Similarity=0.451 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSL 271 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~ 271 (283)
|++||-|...||+.|...
T Consensus 38 N~~L~iEN~~Lr~~l~~~ 55 (110)
T PRK13169 38 NTALRLENDKLRERLEEL 55 (110)
T ss_pred HHHHHHHHHHHHHHHHHh
No 97
>PF08606 Prp19: Prp19/Pso4-like; InterPro: IPR013915 This region is found specifically in PRP19-like protein. The region represented by this protein covers the sequence implicated in self-interaction and a coiled-coiled motif []. PRP19-like proteins form an oligomer that is necessary for spliceosome assembly [].
Probab=23.06 E-value=90 Score=24.63 Aligned_cols=17 Identities=24% Similarity=0.479 Sum_probs=13.7
Q ss_pred hhHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLS 270 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr 270 (283)
|-.||+.+..+||||++
T Consensus 24 ~f~LRk~l~~~rqELs~ 40 (70)
T PF08606_consen 24 NFTLRKQLDQTRQELSH 40 (70)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 66788888888888875
No 98
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=23.06 E-value=1.6e+02 Score=23.95 Aligned_cols=29 Identities=41% Similarity=0.541 Sum_probs=20.4
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHHHHHHH
Q psy17484 247 VKKSRKQNMGLRQEMERLKKENLSLRDKL 275 (283)
Q Consensus 247 IKKARKvNaaLRqEVa~LRKElgr~rniL 275 (283)
++||+|-|+.|-.|-..|..|..-...-+
T Consensus 25 ~~ka~~~~~kL~~en~qlk~Ek~~~~~qv 53 (87)
T PF10883_consen 25 VKKAKKQNAKLQKENEQLKTEKAVAETQV 53 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47888888888888888877755444333
No 99
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=22.98 E-value=1.3e+02 Score=24.66 Aligned_cols=19 Identities=42% Similarity=0.450 Sum_probs=15.1
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLR 272 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~r 272 (283)
|.+|++||..||+++..-|
T Consensus 58 ~~~l~~E~e~L~~~l~~e~ 76 (87)
T PF12709_consen 58 NKALKRENEQLKKKLDTER 76 (87)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 8888888888888776554
No 100
>PF11382 DUF3186: Protein of unknown function (DUF3186); InterPro: IPR021522 This bacterial family of proteins has no known function.
Probab=22.52 E-value=1e+02 Score=29.45 Aligned_cols=36 Identities=22% Similarity=0.280 Sum_probs=20.1
Q ss_pred chhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy17484 245 PMVKKSRKQNMGLRQEMERLKKENLSLRDKLSKFTD 280 (283)
Q Consensus 245 PMIKKARKvNaaLRqEVa~LRKElgr~rniLsKYE~ 280 (283)
+|+..-......||+|..+||.|+..+++.+..+..
T Consensus 32 ~l~~~l~~~~~~lr~e~~~l~~~~~~~~~~~~~~d~ 67 (308)
T PF11382_consen 32 NLIDSLEDQFDSLREENDELRAELDALQAQLNAADQ 67 (308)
T ss_pred hhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345444444455666666666666666665554443
No 101
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=22.36 E-value=1e+02 Score=24.38 Aligned_cols=25 Identities=40% Similarity=0.586 Sum_probs=20.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhh
Q psy17484 255 MGLRQEMERLKKENLSLRDKLSKFT 279 (283)
Q Consensus 255 aaLRqEVa~LRKElgr~rniLsKYE 279 (283)
--++.|++.||+|+..++..+..+.
T Consensus 15 e~~~~e~~~L~~~~~~L~~~~R~~~ 39 (100)
T PF01486_consen 15 EELQQEIAKLRKENESLQKELRHLM 39 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccc
Confidence 4578999999999999998877653
No 102
>TIGR02268 Myxococcus xanthus paralogous family TIGR02268. This family consists of at least 8 paralogs in Myxococcus xanthus, a member of the Deltaproteobacteria. The function is unknown.
Probab=22.22 E-value=74 Score=31.00 Aligned_cols=28 Identities=18% Similarity=0.277 Sum_probs=23.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhhcc
Q psy17484 254 NMGLRQEMERLKKENLSLRDKLSKFTDL 281 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rniLsKYE~~ 281 (283)
.+++++|+.++|-|+.+|+.-+.+|++.
T Consensus 133 ~es~~~E~~~~r~~~~~~~~e~~~lr~~ 160 (295)
T TIGR02268 133 AASYQQEVVELRARNQLLEEENARLRRQ 160 (295)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHhhhh
Confidence 7788888888888888888888887753
No 103
>KOG2216|consensus
Probab=22.12 E-value=1.2e+02 Score=29.93 Aligned_cols=25 Identities=44% Similarity=0.425 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhcc
Q psy17484 257 LRQEMERLKKENLSLRDKLSKFTDL 281 (283)
Q Consensus 257 LRqEVa~LRKElgr~rniLsKYE~~ 281 (283)
|--||.-+|||..+|...=+||+.+
T Consensus 88 l~yev~HlkkeI~~c~~fks~~~el 112 (303)
T KOG2216|consen 88 LLYEVQHLKKEIKRCLDFKSKYTEL 112 (303)
T ss_pred HHHHHHHHHHHHHHHHHhhccCccc
Confidence 4468899999999999999988764
No 104
>cd04776 HTH_GnyR Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR. Putative helix-turn-helix (HTH) regulatory protein, GnyR, and other related proteins. GnyR belongs to the gnyRDBHAL cluster, which is involved in acyclic isoprenoid degradation in Pseudomonas aeruginosa. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=22.11 E-value=84 Score=25.76 Aligned_cols=22 Identities=9% Similarity=0.347 Sum_probs=17.2
Q ss_pred CCCCCCccccCCcchhhhhhhh
Q psy17484 232 RSRTFSDEELKPQPMVKKSRKQ 253 (283)
Q Consensus 232 RkhkFSEEELKPQPMIKKARKv 253 (283)
..|-|++++|.---+|++.|..
T Consensus 33 gyR~Y~~~~l~~l~~I~~lr~~ 54 (118)
T cd04776 33 QTRVYSRRDRARLKLILRGKRL 54 (118)
T ss_pred CccccCHHHHHHHHHHHHHHHC
Confidence 3456788998888888888866
No 105
>cd00427 Ribosomal_L29_HIP Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it participates in forming a protein ring that surrounds the polypeptide exit channel, providing structural support for the ribosome. L29 is involved in forming the translocon binding site, along with L19, L22, L23, L24, and L31e. In addition, L29 and L23 form the interaction site for trigger factor (TF) on the ribosomal surface, adjacent to the exit tunnel. L29 forms numerous interactions with L23 and with the 23S rRNA. In some eukaryotes, L29 is referred to as L35, which is distinct from L35 found in bacteria and some eukaryotes (primarily plastids and mitochondria). The mammalian homolog, HIP, is found on the surface of many tissues and cell lines. It is believed to play a role in cell adhesion and modulat
Probab=21.98 E-value=95 Score=22.63 Aligned_cols=19 Identities=37% Similarity=0.637 Sum_probs=14.3
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLR 272 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~r 272 (283)
..-|..++.+||+|+-.+|
T Consensus 8 ~~eL~~~l~~l~~elf~Lr 26 (57)
T cd00427 8 DEELQEKLDELKKELFNLR 26 (57)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3567778888888887776
No 106
>PF07558 Shugoshin_N: Shugoshin N-terminal coiled-coil region; InterPro: IPR011516 This entry represents the N-terminal domain of Shugoshin (Sgo1) kinetochore-attachment proteins. Shugoshin has a conserved coiled-coil N-terminal domain and a highly conserved C-terminal basic region (IPR011515 from INTERPRO). Shugoshin is a crucial target of Bub1 kinase that plays a central role in chromosome cohesion during mitosis and meiosis divisions by preventing premature dissociation of cohesin complex from centromeres after prophase, when most of cohesin complex dissociates from chromosomes arms [, ]. Shugoshin is thought to act by protecting Rec8 and Rad21 at the centromeres from separase degradation during anaphase I (during meiosis) so that sister chromatids remain tethered []. Shugoshin also acts as a spindle checkpoint component required for sensing tension between sister chromatids during mitosis, its degradation when they separate preventing cell cycle arrest and chromosome loss in anaphase, a time when sister chromatids are no longer under tension. Human shugoshin is diffusible and mediates kinetochore-driven formation of kinetochore-microtubules during bipolar spindle assembly []. Further, the primary role of shugoshin is to ensure bipolar attachment of kinetochores, and its role in protecting cohesion has co-developed to facilitate this process [].; GO: 0045132 meiotic chromosome segregation, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 3FGA_D.
Probab=21.94 E-value=46 Score=23.69 Aligned_cols=20 Identities=25% Similarity=0.335 Sum_probs=3.5
Q ss_pred hhHHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLRD 273 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rn 273 (283)
|++|...|.+|.+|+.++++
T Consensus 16 Ns~l~~ki~~le~~~s~L~~ 35 (46)
T PF07558_consen 16 NSALSIKIQELENEVSKLLN 35 (46)
T ss_dssp --------------HHHHHH
T ss_pred hHHHHhHHHHHHhHHHHHHH
Confidence 77777777666666666554
No 107
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=21.92 E-value=1.1e+02 Score=30.26 Aligned_cols=36 Identities=33% Similarity=0.504 Sum_probs=27.7
Q ss_pred chhhhhhhhhhHHHHHHHHHHHHH-------HHHHHHHhhhhc
Q psy17484 245 PMVKKSRKQNMGLRQEMERLKKEN-------LSLRDKLSKFTD 280 (283)
Q Consensus 245 PMIKKARKvNaaLRqEVa~LRKEl-------gr~rniLsKYE~ 280 (283)
.++..+|..|-.|..||.+||+.+ --+|..+++++.
T Consensus 72 ~lL~~sre~Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~la~~r~ 114 (319)
T PF09789_consen 72 QLLSESREQNKKLKEEVEELRQKLNEAQGDIKLLREKLARQRV 114 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHhhhh
Confidence 577888888888888888888875 337777877764
No 108
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=21.43 E-value=1.3e+02 Score=26.91 Aligned_cols=31 Identities=26% Similarity=0.291 Sum_probs=21.5
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHHHhhhh
Q psy17484 249 KSRKQNMGLRQEMERLKKENLSLRDKLSKFT 279 (283)
Q Consensus 249 KARKvNaaLRqEVa~LRKElgr~rniLsKYE 279 (283)
+.|+....+|++++++|++|...+..|+++.
T Consensus 81 ~~~~~i~~~r~~l~~~~~~l~~~~~~l~~~~ 111 (302)
T PF10186_consen 81 RLRKRIEQKRERLEELRESLEQRRSRLSASQ 111 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344477778888888888888777776443
No 109
>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=21.43 E-value=57 Score=25.03 Aligned_cols=23 Identities=30% Similarity=0.498 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Q psy17484 256 GLRQEMERLKKENLSLRDKLSKF 278 (283)
Q Consensus 256 aLRqEVa~LRKElgr~rniLsKY 278 (283)
|.|.||.-||..+..+....+.+
T Consensus 11 AVrEEVevLK~~I~eL~~~n~~L 33 (59)
T PF01166_consen 11 AVREEVEVLKEQIAELEERNSQL 33 (59)
T ss_dssp T-TTSHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555544444433
No 110
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=21.20 E-value=97 Score=24.97 Aligned_cols=21 Identities=10% Similarity=0.371 Sum_probs=16.3
Q ss_pred CCCCCccccCCcchhhhhhhh
Q psy17484 233 SRTFSDEELKPQPMVKKSRKQ 253 (283)
Q Consensus 233 khkFSEEELKPQPMIKKARKv 253 (283)
-|.|+++++.---+|+..|+.
T Consensus 36 yR~Y~~~~i~~l~~I~~lr~~ 56 (123)
T cd04770 36 YRLYGEADLARLRFIRRAQAL 56 (123)
T ss_pred CccCCHHHHHHHHHHHHHHHC
Confidence 456788888888888888766
No 111
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=21.03 E-value=81 Score=24.46 Aligned_cols=34 Identities=35% Similarity=0.571 Sum_probs=24.9
Q ss_pred CCCCccccCCcchhhhhhhh---------h-------hHHHHHHHHHHHHHHHHHH
Q psy17484 234 RTFSDEELKPQPMVKKSRKQ---------N-------MGLRQEMERLKKENLSLRD 273 (283)
Q Consensus 234 hkFSEEELKPQPMIKKARKv---------N-------aaLRqEVa~LRKElgr~rn 273 (283)
..|+.++| ..+||+ | .-|-++|..||+|+.++||
T Consensus 35 ~~f~~~~l------~rl~~~~rL~~Dl~in~~gi~lil~LLd~i~~L~~el~~L~~ 84 (84)
T PF13591_consen 35 WYFSEEDL------ARLRRIRRLHRDLGINLEGIALILDLLDRIEQLRRELRELRR 84 (84)
T ss_pred eeECHHHH------HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 34787765 566666 3 3478899999999988875
No 112
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules, such as, metal ions, drugs, and organic substrates. This subgroup lacks one of the c
Probab=20.61 E-value=96 Score=25.73 Aligned_cols=20 Identities=20% Similarity=0.441 Sum_probs=15.4
Q ss_pred CCCCccccCCcchhhhhhhh
Q psy17484 234 RTFSDEELKPQPMVKKSRKQ 253 (283)
Q Consensus 234 hkFSEEELKPQPMIKKARKv 253 (283)
|.|+++++.---+|+..|+.
T Consensus 37 R~Y~~~~~~~l~~I~~lr~~ 56 (133)
T cd04787 37 RLYSEKDLSRLRFILSARQL 56 (133)
T ss_pred eeCCHHHHHHHHHHHHHHHc
Confidence 45788888888888888776
No 113
>PF12644 DUF3782: Protein of unknown function (DUF3782); InterPro: IPR024271 This functionally uncharacterised family of proteins is found in bacteria and archaea. Proteins in this family are typically between 91 and 186 amino acids in length.
Probab=20.30 E-value=1.1e+02 Score=22.10 Aligned_cols=30 Identities=20% Similarity=0.392 Sum_probs=20.8
Q ss_pred hhhhHHHHHHHHHHH-HHHHHHHHHhhhhcc
Q psy17484 252 KQNMGLRQEMERLKK-ENLSLRDKLSKFTDL 281 (283)
Q Consensus 252 KvNaaLRqEVa~LRK-Elgr~rniLsKYE~~ 281 (283)
+-+.++++++.++++ ....-..+|.+|...
T Consensus 8 ~~i~a~~e~l~~~~~~lt~e~~~~l~~~~~a 38 (64)
T PF12644_consen 8 DEIMATKEELEELEERLTKEDKKRLEEYIDA 38 (64)
T ss_pred HHHHHHHHHHHHHHhhcCHHHHHHHHHHHHH
Confidence 347888888888877 555556666666554
No 114
>cd01108 HTH_CueR Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators. Helix-turn-helix (HTH) transcription regulators CueR and ActP, copper efflux regulators. In Bacillus subtilis, copper induced CueR regulates the copZA operon, preventing copper toxicity. In Rhizobium leguminosarum, ActP controls copper homeostasis; it detects cytoplasmic copper stress and activates transcription in response to increasing copper concentrations. These proteins are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have two conserved cysteines that define a monovalent copper ion binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements
Probab=20.16 E-value=82 Score=25.92 Aligned_cols=21 Identities=10% Similarity=0.455 Sum_probs=17.2
Q ss_pred CCCCCccccCCcchhhhhhhh
Q psy17484 233 SRTFSDEELKPQPMVKKSRKQ 253 (283)
Q Consensus 233 khkFSEEELKPQPMIKKARKv 253 (283)
.|.|+++++.---+|+..|+.
T Consensus 36 ~R~Y~~~~~~~l~~I~~lr~~ 56 (127)
T cd01108 36 YRVYNQRDIEELRFIRRARDL 56 (127)
T ss_pred ceecCHHHHHHHHHHHHHHHc
Confidence 456799999988899888866
No 115
>PRK12461 UDP-N-acetylglucosamine acyltransferase; Provisional
Probab=20.15 E-value=46 Score=30.84 Aligned_cols=35 Identities=23% Similarity=0.481 Sum_probs=27.6
Q ss_pred CCCCCCccccCCcchhhhhhhh----hhHHHHHHHHHHHHHH
Q psy17484 232 RSRTFSDEELKPQPMVKKSRKQ----NMGLRQEMERLKKENL 269 (283)
Q Consensus 232 RkhkFSEEELKPQPMIKKARKv----NaaLRqEVa~LRKElg 269 (283)
||+.|++|+++ -||+|=|+ +..|++=+++|++|+.
T Consensus 196 ~r~g~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 234 (255)
T PRK12461 196 RRRGFSSRAIR---ALKRAYKIIYRSGLSVQQAVAELELQQF 234 (255)
T ss_pred hhcCCCHHHHH---HHHHHHHHHHhcCCCHHHHHHHHHHhcc
Confidence 78889999998 78999887 5566666777777654
No 116
>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []. It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex
Probab=20.09 E-value=91 Score=30.39 Aligned_cols=20 Identities=35% Similarity=0.350 Sum_probs=17.1
Q ss_pred hhHHHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSLRD 273 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~rn 273 (283)
-+.||.||++|+.|+...++
T Consensus 96 l~RL~~Ev~EL~eEl~~~~~ 115 (388)
T PF04912_consen 96 LQRLRREVEELKEELEKRKA 115 (388)
T ss_pred HHHHHHHHHHHHHHHHHHhh
Confidence 46799999999999998754
No 117
>PRK00708 sec-independent translocase; Provisional
Probab=20.07 E-value=1.2e+02 Score=28.29 Aligned_cols=26 Identities=23% Similarity=0.415 Sum_probs=17.0
Q ss_pred hhhhhhhh--------hhHHHH-HHHHHHHHHHHH
Q psy17484 246 MVKKSRKQ--------NMGLRQ-EMERLKKENLSL 271 (283)
Q Consensus 246 MIKKARKv--------NaaLRq-EVa~LRKElgr~ 271 (283)
+|+++|++ +..||+ |+.++|+++...
T Consensus 35 ~v~k~R~~a~e~r~~~~e~~~~~eldd~~k~~~~~ 69 (209)
T PRK00708 35 MTARMRKMAGEFRRQFDEALREAELDDVRQTISDA 69 (209)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence 56777776 566664 777777766443
No 118
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=20.01 E-value=1.3e+02 Score=24.00 Aligned_cols=18 Identities=28% Similarity=0.285 Sum_probs=15.0
Q ss_pred hhHHHHHHHHHHHHHHHH
Q psy17484 254 NMGLRQEMERLKKENLSL 271 (283)
Q Consensus 254 NaaLRqEVa~LRKElgr~ 271 (283)
=.+|.|||++|++.|..=
T Consensus 10 r~~LeqeV~~Lq~~L~~E 27 (88)
T PF14389_consen 10 RSALEQEVAELQKQLQEE 27 (88)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 368999999999998753
Done!