Query psy2493
Match_columns 62
No_of_seqs 148 out of 1028
Neff 8.0
Searched_HMMs 46136
Date Fri Aug 16 17:38:18 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2493.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2493hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0819|consensus 99.9 1.2E-23 2.7E-28 134.2 2.8 62 1-62 241-302 (321)
2 KOG0819|consensus 99.9 1.9E-22 4.1E-27 128.8 2.4 62 1-62 82-143 (321)
3 PF00191 Annexin: Annexin; In 99.7 1.6E-19 3.5E-24 92.5 -1.1 52 11-62 1-52 (66)
4 smart00335 ANX Annexin repeats 99.3 8.3E-14 1.8E-18 68.6 -1.8 39 24-62 1-39 (53)
5 PF13043 DUF3903: Domain of un 73.7 2 4.3E-05 19.8 0.9 17 42-58 10-26 (40)
6 PF14003 YlbE: YlbE-like prote 67.1 2.2 4.7E-05 22.0 0.3 28 34-61 17-44 (65)
7 PF13720 Acetyltransf_11: Udp 66.4 2.3 5E-05 22.5 0.3 17 38-54 29-45 (83)
8 KOG1751|consensus 59.4 11 0.00024 22.6 2.3 39 17-58 85-123 (157)
9 PF02097 Filo_VP35: Filovirida 59.0 1.6 3.5E-05 28.5 -1.3 44 9-52 202-247 (321)
10 KOG2352|consensus 56.7 27 0.00058 24.5 4.1 59 3-61 385-447 (482)
11 PF12098 DUF3574: Protein of u 56.4 10 0.00022 21.2 1.7 17 39-55 74-90 (104)
12 cd02198 YjgH_like YjgH belongs 55.7 13 0.00029 20.1 2.2 42 13-54 39-82 (111)
13 cd06150 YjgF_YER057c_UK114_lik 50.4 20 0.00043 19.2 2.3 40 15-54 37-77 (105)
14 COG1043 LpxA Acyl-[acyl carrie 45.8 5.5 0.00012 25.6 -0.4 17 38-54 206-222 (260)
15 TIGR03610 RutC pyrimidine util 45.4 23 0.00051 19.9 2.2 40 15-54 58-98 (127)
16 PF01042 Ribonuc_L-PSP: Endori 44.9 43 0.00093 18.3 3.2 42 14-55 50-92 (121)
17 cd06155 eu_AANH_C_1 A group of 44.7 25 0.00053 18.8 2.1 41 14-54 33-74 (101)
18 cd06151 YjgF_YER057c_UK114_lik 43.1 46 0.00099 18.5 3.1 41 15-55 49-96 (126)
19 PF05303 DUF727: Protein of un 42.3 27 0.00059 19.4 2.1 20 42-61 85-104 (108)
20 cd06153 YjgF_YER057c_UK114_lik 39.7 42 0.00092 18.5 2.6 39 15-54 44-89 (114)
21 PF13062 DUF3924: Protein of u 39.5 10 0.00022 18.8 0.0 20 40-59 14-33 (62)
22 PF09778 Guanylate_cyc_2: Guan 38.3 35 0.00076 21.4 2.3 19 13-31 192-210 (212)
23 KOG2027|consensus 37.4 26 0.00056 23.9 1.7 21 40-60 98-118 (388)
24 cd06154 YjgF_YER057c_UK114_lik 36.5 41 0.0009 18.4 2.3 41 14-54 51-92 (119)
25 PRK13835 conjugal transfer pro 36.3 36 0.00079 20.1 2.0 18 6-24 65-82 (145)
26 KOG0739|consensus 36.0 31 0.00067 23.5 1.9 34 19-52 259-293 (439)
27 KOG4621|consensus 35.8 32 0.0007 20.3 1.7 19 13-31 144-162 (167)
28 cd00448 YjgF_YER057c_UK114_fam 35.7 54 0.0012 17.0 2.6 42 14-55 39-81 (107)
29 PF12652 CotJB: CotJB protein; 35.4 15 0.00033 19.4 0.3 15 40-54 40-54 (78)
30 PF08587 UBA_2: Ubiquitin asso 35.3 12 0.00026 18.0 -0.1 27 24-50 14-41 (46)
31 PRK13883 conjugal transfer pro 35.2 39 0.00085 20.1 2.1 21 4-24 57-77 (151)
32 PF04711 ApoA-II: Apolipoprote 33.8 48 0.001 17.5 2.0 23 39-61 4-29 (76)
33 cd06152 YjgF_YER057c_UK114_lik 33.3 57 0.0012 17.9 2.5 41 14-54 41-86 (114)
34 TIGR00004 endoribonuclease L-P 33.0 54 0.0012 18.0 2.3 40 14-54 55-96 (124)
35 PRK12461 UDP-N-acetylglucosami 31.9 14 0.00031 23.3 -0.2 19 38-56 201-219 (255)
36 cd06395 PB1_Map2k5 PB1 domain 30.3 50 0.0011 17.9 1.8 22 32-54 53-74 (91)
37 PRK11401 putative endoribonucl 29.3 70 0.0015 17.8 2.4 41 14-54 55-96 (129)
38 PF08748 DUF1789: Domain of un 28.9 25 0.00055 20.2 0.6 44 10-53 75-121 (128)
39 PF03398 Ist1: Regulator of Vp 28.3 18 0.00039 21.4 -0.1 21 40-60 103-123 (165)
40 COG3324 Predicted enzyme relat 28.1 21 0.00045 20.6 0.1 21 40-60 18-38 (127)
41 KOG1769|consensus 28.0 39 0.00084 18.8 1.2 18 40-57 41-58 (99)
42 PF13373 DUF2407_C: DUF2407 C- 26.8 25 0.00054 20.5 0.3 18 37-54 11-28 (140)
43 PRK15058 cytochrome b562; Prov 26.3 23 0.00049 20.5 0.0 15 40-54 114-128 (128)
44 PF10012 DUF2255: Uncharacteri 26.0 17 0.00037 20.7 -0.5 18 38-55 79-96 (116)
45 cd03074 PDI_b'_Calsequestrin_C 26.0 1.4E+02 0.003 17.1 3.2 51 7-59 32-82 (120)
46 PF03531 SSrecog: Structure-sp 24.2 36 0.00079 21.4 0.7 21 39-59 6-26 (222)
47 PRK09786 endodeoxyribonuclease 23.1 1.4E+02 0.0029 16.8 2.8 28 12-39 74-103 (120)
48 PF10788 DUF2603: Protein of u 22.9 92 0.002 18.3 2.1 20 42-61 65-84 (137)
49 cd06156 eu_AANH_C_2 A group of 22.9 1.5E+02 0.0032 16.3 3.5 39 16-55 42-80 (118)
50 PF03705 CheR_N: CheR methyltr 22.6 43 0.00092 15.7 0.6 19 40-58 3-21 (57)
51 PF08771 Rapamycin_bind: Rapam 22.2 1.1E+02 0.0023 16.7 2.2 13 48-60 55-67 (100)
52 PF06854 Phage_Gp15: Bacteriop 22.0 44 0.00094 20.3 0.7 22 39-60 108-129 (183)
53 PF07283 TrbH: Conjugal transf 21.9 89 0.0019 17.8 1.9 19 6-24 31-49 (121)
54 PRK10907 intramembrane serine 21.6 2E+02 0.0044 18.5 3.7 48 4-52 4-55 (276)
55 KOG4001|consensus 21.1 92 0.002 19.8 2.0 24 34-57 150-173 (259)
56 cd02906 Macro_1 Macro domain, 21.1 1.2E+02 0.0026 17.4 2.4 30 31-60 14-51 (147)
57 PF09349 OHCU_decarbox: OHCU d 20.7 36 0.00079 19.9 0.2 18 40-57 97-114 (159)
58 cd05312 NAD_bind_1_malic_enz N 20.2 1.6E+02 0.0036 19.1 3.1 50 12-61 40-101 (279)
59 PF13112 DUF3965: Protein of u 20.1 1.4E+02 0.0029 19.2 2.6 28 8-35 211-238 (291)
No 1
>KOG0819|consensus
Probab=99.88 E-value=1.2e-23 Score=134.17 Aligned_cols=62 Identities=52% Similarity=0.935 Sum_probs=60.2
Q ss_pred CceeeccchHHHHHHHHHHhhcCCCCcceeeEeeeeccccccchhhHHHHHHHHHHHHHhhC
Q psy2493 1 MIRCVRDKSAYLAQRLENAMAGMGTNDRTLIRIIVTRSEIDLGDIKQDYLKMYETTLEERIK 62 (62)
Q Consensus 1 iv~~~~~~~~~~a~~L~~a~kg~gt~e~~Li~il~~rs~~~l~~i~~~y~~~yg~~L~~~I~ 62 (62)
||.|+++|+.|||+.||+||+|.|||+++||||++|||+.||..|+..|+++||+||.++|+
T Consensus 241 iv~c~~n~~~yFA~~L~~amkg~GTdd~~LiRI~VsRsEiDl~~Ik~ef~~~Y~ksL~~~I~ 302 (321)
T KOG0819|consen 241 IVKCIRNPPAYFAERLRKAMKGLGTDDKTLIRIVVSRSEIDLLDIKEEFQRKYGKSLYSAIK 302 (321)
T ss_pred HHHHHcCHHHHHHHHHHHHHhccCCCccceeeeeeeHHHhhHHHHHHHHHHHhCccHHHHHh
Confidence 57899999999999999999999999999999999999999999999999999999999885
No 2
>KOG0819|consensus
Probab=99.85 E-value=1.9e-22 Score=128.80 Aligned_cols=62 Identities=35% Similarity=0.678 Sum_probs=59.9
Q ss_pred CceeeccchHHHHHHHHHHhhcCCCCcceeeEeeeeccccccchhhHHHHHHHHHHHHHhhC
Q psy2493 1 MIRCVRDKSAYLAQRLENAMAGMGTNDRTLIRIIVTRSEIDLGDIKQDYLKMYETTLEERIK 62 (62)
Q Consensus 1 iv~~~~~~~~~~a~~L~~a~kg~gt~e~~Li~il~~rs~~~l~~i~~~y~~~yg~~L~~~I~ 62 (62)
||.++.+|+.|||..|++||||+|||+++||+|+|||++.||.+|+++|+..|++||+++|.
T Consensus 82 i~al~~~p~~~DA~~l~~amkg~gtde~vlIEIlcTRT~~el~~i~~aY~~~y~~sLEeDI~ 143 (321)
T KOG0819|consen 82 IVALMKPPAEYDAKELKKAMKGLGTDEKVLIEILCTRTNEELRAIRQAYQELYKKSLEEDIA 143 (321)
T ss_pred HHHHcCCHHHhHHHHHHHHHhccCcchhhheeeeccCCHHHHHHHHHHHHHHHcccHHHHhh
Confidence 57889999999999999999999999999999999999999999999999999999999984
No 3
>PF00191 Annexin: Annexin; InterPro: IPR018502 The annexins (or lipocortins) are a family of proteins that bind to phospholipids in a calcium-dependent manner []. They are distributed ubiquitously in different tissues and cell types of higher and lower eukaryotes, including mammals, fish, birds, Drosophila melanogaster (Fruit fly), Xenopus laevis (African clawed frog), Caenorhabditis elegans , Dictyostelium discoideum (Slime mold) and Neurospora crassa [, ]. Annexins are absent from yeasts and prokaryotes []. The plant annexins are somewhat distinct from those found in other taxa []. Most eukaryotic species have 1-20 annexin (ANX) genes. All annexins share a core domain made up of four similar repeats, each approximately 70 amino acids long []. Each individual annexin repeat (sometimes referred to as endonexin folds) is folded into five alpha-helices, and in turn are wound into a right-handed super-helix; they usually contain a characteristic 'type 2' motif for binding calcium ions with the sequence 'GxGT-[38 residues]-D/E'. Animal and fungal annexins also have variable amino-terminal domains. The core domains of most vertebrate annexins have been analysed by X-ray crystallography, revealing conservation of their secondary and tertiary structures despite only 45-55% amino-acid identity among individual members. The four repeats pack into a structure that resembles a flattened disc, with a slightly convex surface on which the Ca 2+ -binding loops are located and a concave surface at which the amino and carboxyl termini come into close apposition. Annexins are traditionally thought of as calcium-dependent phospholipid-binding proteins, but recent work suggests a more complex set of functions. The famiy has been linked with inhibition of phospholipase activity, exocytosis and endoctyosis, signal transduction, organisation of the extracellular matrix, resistance to reactive oxygen species and DNA replication [].; GO: 0005509 calcium ion binding, 0005544 calcium-dependent phospholipid binding; PDB: 1N44_A 1BC1_A 2IE6_A 2H0M_A 1A8B_A 2H0K_A 1BCW_A 1BCZ_A 1N42_A 1BC0_A ....
Probab=99.73 E-value=1.6e-19 Score=92.50 Aligned_cols=52 Identities=48% Similarity=0.661 Sum_probs=49.3
Q ss_pred HHHHHHHHHhhcCCCCcceeeEeeeeccccccchhhHHHHHHHHHHHHHhhC
Q psy2493 11 YLAQRLENAMAGMGTNDRTLIRIIVTRSEIDLGDIKQDYLKMYETTLEERIK 62 (62)
Q Consensus 11 ~~a~~L~~a~kg~gt~e~~Li~il~~rs~~~l~~i~~~y~~~yg~~L~~~I~ 62 (62)
+||+.|++|++|+|+|+..+++|+++||+.|+..|+++|++.||++|+++|+
T Consensus 1 ~DA~~l~~a~~~~g~de~~li~Il~~rs~~ql~~i~~~Y~~~~g~~L~~~i~ 52 (66)
T PF00191_consen 1 YDAELLHAALKGWGTDEDVLIEILCTRSPAQLRAIKQAYKKKYGKDLEEDIK 52 (66)
T ss_dssp HHHHHHHHHHSSSSSTHHHHHHHHHHSTHHHHHHHHHHHHHHHSS-HHHHHH
T ss_pred CHHHHHHHHccCCCCChhHhhhHHhhhcccccceeehhhhhhhHHHHHHHHH
Confidence 6999999999999999999999999999999999999999999999999874
No 4
>smart00335 ANX Annexin repeats.
Probab=99.31 E-value=8.3e-14 Score=68.63 Aligned_cols=39 Identities=49% Similarity=0.750 Sum_probs=37.5
Q ss_pred CCCcceeeEeeeeccccccchhhHHHHHHHHHHHHHhhC
Q psy2493 24 GTNDRTLIRIIVTRSEIDLGDIKQDYLKMYETTLEERIK 62 (62)
Q Consensus 24 gt~e~~Li~il~~rs~~~l~~i~~~y~~~yg~~L~~~I~ 62 (62)
||||..|++|+++|++.|+.+|+++|++.||++|.++|+
T Consensus 1 gtde~~l~~il~~rs~~~~~~i~~~Y~~~~~~~L~~~i~ 39 (53)
T smart00335 1 GTDEKTLIEILASRSNAQLQAIKQAYKKRYGKDLEDDIK 39 (53)
T ss_pred CCCHHHHHHHHHcCCHHHHHHHHHHHHHHhCccHHHHHH
Confidence 799999999999999999999999999999999999874
No 5
>PF13043 DUF3903: Domain of unknown function (DUF3903)
Probab=73.66 E-value=2 Score=19.78 Aligned_cols=17 Identities=12% Similarity=0.337 Sum_probs=14.3
Q ss_pred cchhhHHHHHHHHHHHH
Q psy2493 42 LGDIKQDYLKMYETTLE 58 (62)
Q Consensus 42 l~~i~~~y~~~yg~~L~ 58 (62)
+++++..-+++||++|-
T Consensus 10 i~kvr~eckrrfgktll 26 (40)
T PF13043_consen 10 IQKVRAECKRRFGKTLL 26 (40)
T ss_pred HHHHHHHHHHHhchhhh
Confidence 56788899999999874
No 6
>PF14003 YlbE: YlbE-like protein
Probab=67.08 E-value=2.2 Score=22.00 Aligned_cols=28 Identities=21% Similarity=0.497 Sum_probs=23.8
Q ss_pred eeeccccccchhhHHHHHHHHHHHHHhh
Q psy2493 34 IVTRSEIDLGDIKQDYLKMYETTLEERI 61 (62)
Q Consensus 34 l~~rs~~~l~~i~~~y~~~yg~~L~~~I 61 (62)
.++|.|.++...-.++...|+++.-+.|
T Consensus 17 ~LsR~P~~l~~fe~~a~~~y~kT~p~rV 44 (65)
T PF14003_consen 17 ILSRNPEELEAFEKEAKHFYKKTIPHRV 44 (65)
T ss_pred HHccCHHHHHHHHHHHHHHHhccccHHH
Confidence 4579999999999999999999877655
No 7
>PF13720 Acetyltransf_11: Udp N-acetylglucosamine O-acyltransferase; Domain 2; PDB: 3I3A_A 3I3X_A 3HSQ_B 2JF2_A 1LXA_A 2AQ9_A 2QIV_X 2QIA_A 2JF3_A 4EQY_F ....
Probab=66.36 E-value=2.3 Score=22.51 Aligned_cols=17 Identities=12% Similarity=0.487 Sum_probs=14.1
Q ss_pred cccccchhhHHHHHHHH
Q psy2493 38 SEIDLGDIKQDYLKMYE 54 (62)
Q Consensus 38 s~~~l~~i~~~y~~~yg 54 (62)
++.++..|+++|+..|.
T Consensus 29 s~~~i~~l~~ayr~l~~ 45 (83)
T PF13720_consen 29 SKEEISALRRAYRILFR 45 (83)
T ss_dssp -HHHHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHHHHHHh
Confidence 55789999999999994
No 8
>KOG1751|consensus
Probab=59.41 E-value=11 Score=22.60 Aligned_cols=39 Identities=31% Similarity=0.498 Sum_probs=29.6
Q ss_pred HHHhhcCCCCcceeeEeeeeccccccchhhHHHHHHHHHHHH
Q psy2493 17 ENAMAGMGTNDRTLIRIIVTRSEIDLGDIKQDYLKMYETTLE 58 (62)
Q Consensus 17 ~~a~kg~gt~e~~Li~il~~rs~~~l~~i~~~y~~~yg~~L~ 58 (62)
++||+.. .|..+|+.++..+.+. .+|+++...+|+.+..
T Consensus 85 EsamKk~-ednNtlvf~vd~kank--hqiKqAVkkLyd~dva 123 (157)
T KOG1751|consen 85 ESAMKKI-EDNNTLVFIVDSKANK--HQIKQAVKKLYDTDVA 123 (157)
T ss_pred hhhhcch-hhCceeEEEEecccch--HHHHHHHHHHhccchh
Confidence 4567653 4555888888877775 8999999999988754
No 9
>PF02097 Filo_VP35: Filoviridae VP35; InterPro: IPR002953 The filoviridae are a group of viruses that cause haemorrhagic fevers with a high mortality rate. The family currently contains three viruses: Ebola virus sp., Lake Victoria marburgvirus and Reston ebolavirus, named after their corresponding outbreak regions. They possess negative-stranded RNA genomes, which encode at least 7 proteins. The VP35 protein is found in the genomes of all filoviruses. Its function is presently unknown, but it is thought to share the function of the phosphorylated proteins (polymerase subunits) of rhabdoviruses and paramyxoviruses due to its position in the genome. There is no evidence however, to suggest that VP35 is phosphorylated [].; PDB: 3KS8_D 3L2A_A 3KS4_A 3L28_E 3L25_D 3FKE_B 3L26_A 3L27_D 3L29_B.
Probab=58.97 E-value=1.6 Score=28.52 Aligned_cols=44 Identities=23% Similarity=0.385 Sum_probs=36.1
Q ss_pred hHHHHHHHHHHhhcCCCCcceeeEeee--eccccccchhhHHHHHH
Q psy2493 9 SAYLAQRLENAMAGMGTNDRTLIRIIV--TRSEIDLGDIKQDYLKM 52 (62)
Q Consensus 9 ~~~~a~~L~~a~kg~gt~e~~Li~il~--~rs~~~l~~i~~~y~~~ 52 (62)
+.-+...|++-+-|.||....|+.+|| +|++.+|..+...|++.
T Consensus 202 akdl~~il~~HLpG~~TAFHqLvqvI~kvgkD~~~Ldv~haeFq~~ 247 (321)
T PF02097_consen 202 AKDLKRILYDHLPGFGTAFHQLVQVICKVGKDNHDLDVIHAEFQAS 247 (321)
T ss_dssp HHHHHHHHHHCSSSSSBHHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHhhCCCCCchHHHHHHHHHHHcccchHHHHHHHHHHHH
Confidence 445678888899999999999998877 78889999988888764
No 10
>KOG2352|consensus
Probab=56.66 E-value=27 Score=24.54 Aligned_cols=59 Identities=20% Similarity=0.215 Sum_probs=45.0
Q ss_pred eeeccchHHHHHHHHHHhhcCCCCcceeeEeeeeccccc----cchhhHHHHHHHHHHHHHhh
Q psy2493 3 RCVRDKSAYLAQRLENAMAGMGTNDRTLIRIIVTRSEID----LGDIKQDYLKMYETTLEERI 61 (62)
Q Consensus 3 ~~~~~~~~~~a~~L~~a~kg~gt~e~~Li~il~~rs~~~----l~~i~~~y~~~yg~~L~~~I 61 (62)
++..+|+.|-|+..-.++|-.-+-...++=-+++|+... +..++..|...|+..+++++
T Consensus 385 g~~~pp~~fva~~~l~~~k~~l~p~g~f~inlv~r~~~~~~~~~~~l~~vf~~l~~~~~~~~~ 447 (482)
T KOG2352|consen 385 GMQCPPPAFVAQVALQPVKMILPPRGMFIINLVTRNSSFKDEVLMNLAKVFPQLYHHQLEEDV 447 (482)
T ss_pred cCcCCchHHHHHHHHHHHhhccCccceEEEEEecCCcchhHHHHHhhhhhhHHHhhhhccCCC
Confidence 456789999999999988876666666665567776633 44788889999999888764
No 11
>PF12098 DUF3574: Protein of unknown function (DUF3574); InterPro: IPR021957 This family of proteins is functionally uncharacterised. This protein is found in bacteria and viruses. Proteins in this family are typically between 144 to 163 amino acids in length. This protein has a conserved TPRF sequence motif.
Probab=56.40 E-value=10 Score=21.18 Aligned_cols=17 Identities=18% Similarity=0.483 Sum_probs=14.1
Q ss_pred ccccchhhHHHHHHHHH
Q psy2493 39 EIDLGDIKQDYLKMYET 55 (62)
Q Consensus 39 ~~~l~~i~~~y~~~yg~ 55 (62)
+..+.+|+++|++.|+.
T Consensus 74 ~~~i~~Ir~~Yk~rF~Q 90 (104)
T PF12098_consen 74 EARIEAIREAYKQRFQQ 90 (104)
T ss_pred HHHHHHHHHHHHHHhcc
Confidence 36688999999999864
No 12
>cd02198 YjgH_like YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=55.74 E-value=13 Score=20.13 Aligned_cols=42 Identities=10% Similarity=0.116 Sum_probs=28.3
Q ss_pred HHHHHHHhhcCCCCcceeeEe--eeeccccccchhhHHHHHHHH
Q psy2493 13 AQRLENAMAGMGTNDRTLIRI--IVTRSEIDLGDIKQDYLKMYE 54 (62)
Q Consensus 13 a~~L~~a~kg~gt~e~~Li~i--l~~rs~~~l~~i~~~y~~~yg 54 (62)
.+.|...++..|.+-+-++++ .++....++..+.+.|.+.|+
T Consensus 39 ~~ni~~~L~~aG~~~~dvvk~~vyl~~~~~~~~~~~~~~~~~f~ 82 (111)
T cd02198 39 FQNLGAVLEAAGCSFDDVVELTTFHVDMAAHLPAFAAVKDEYFK 82 (111)
T ss_pred HHHHHHHHHHcCCCHHHEEEEEEEEeccHHHHHHHHHHHHHHcC
Confidence 445666777778777777655 334344678888888888776
No 13
>cd06150 YjgF_YER057c_UK114_like_2 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=50.36 E-value=20 Score=19.22 Aligned_cols=40 Identities=8% Similarity=0.187 Sum_probs=26.0
Q ss_pred HHHHHhhcCCCCcceeeEee-eeccccccchhhHHHHHHHH
Q psy2493 15 RLENAMAGMGTNDRTLIRII-VTRSEIDLGDIKQDYLKMYE 54 (62)
Q Consensus 15 ~L~~a~kg~gt~e~~Li~il-~~rs~~~l~~i~~~y~~~yg 54 (62)
.|...++..|.+-+-++.+- --++..++..+.+.|.+.|+
T Consensus 37 nl~~~L~~~G~~~~dvvk~~vyl~d~~~~~~~~~~~~~~f~ 77 (105)
T cd06150 37 KIDALLAEAGSDKSRILSATIWLADMADFAAMNAVWDAWVP 77 (105)
T ss_pred HHHHHHHHcCCCHHHEEEEEEEEccHHHHHHHHHHHHHHcC
Confidence 34556666666666555442 22555778888888888876
No 14
>COG1043 LpxA Acyl-[acyl carrier protein]
Probab=45.85 E-value=5.5 Score=25.63 Aligned_cols=17 Identities=12% Similarity=0.438 Sum_probs=14.1
Q ss_pred cccccchhhHHHHHHHH
Q psy2493 38 SEIDLGDIKQDYLKMYE 54 (62)
Q Consensus 38 s~~~l~~i~~~y~~~yg 54 (62)
+.+++.+|+++|+..|.
T Consensus 206 ~~e~i~alr~ayk~lfr 222 (260)
T COG1043 206 SREEIHALRKAYKLLFR 222 (260)
T ss_pred CHHHHHHHHHHHHHHee
Confidence 34778999999999984
No 15
>TIGR03610 RutC pyrimidine utilization protein C. This protein is observed in operons extremely similar to that characterized in E. coli K-12 responsible for the import and catabolism of pyrimidines, primarily uracil. This protein is a member of the endoribonuclease L-PSP family defined by pfam01042.
Probab=45.37 E-value=23 Score=19.86 Aligned_cols=40 Identities=13% Similarity=0.206 Sum_probs=26.0
Q ss_pred HHHHHhhcCCCCcceeeEeee-eccccccchhhHHHHHHHH
Q psy2493 15 RLENAMAGMGTNDRTLIRIIV-TRSEIDLGDIKQDYLKMYE 54 (62)
Q Consensus 15 ~L~~a~kg~gt~e~~Li~il~-~rs~~~l~~i~~~y~~~yg 54 (62)
.|...++..|.+-+-++++.+ -.+..++..+.++|.+.|+
T Consensus 58 ni~~iL~~aG~~~~dvv~~~iyl~d~~~~~~~~~~~~~~f~ 98 (127)
T TIGR03610 58 TIKSVIETAGGTMDDVTFNHIFIRDWADYAAINEVYAEYFP 98 (127)
T ss_pred HHHHHHHHcCCCHHHEEEEEEEEcCHHHHHHHHHHHHHHcC
Confidence 345566666766666665422 2444678888888888775
No 16
>PF01042 Ribonuc_L-PSP: Endoribonuclease L-PSP; InterPro: IPR006175 This domain is found in endoribonuclease, that is active on single-stranded mRNA and inhibits protein synthesis by cleavage of mRNA []. Previously it was thought to inhibit protein synthesis initiation []. This endoribonuclease may also be involved in the regulation of purine biosynthesis []. ; PDB: 3GTZ_B 3V4D_E 1J7H_A 3R0P_D 2IG8_A 1QD9_B 3L7Q_E 3VCZ_A 3QUW_A 2EWC_K ....
Probab=44.91 E-value=43 Score=18.31 Aligned_cols=42 Identities=12% Similarity=0.331 Sum_probs=26.6
Q ss_pred HHHHHHhhcCCCCcceeeEeee-eccccccchhhHHHHHHHHH
Q psy2493 14 QRLENAMAGMGTNDRTLIRIIV-TRSEIDLGDIKQDYLKMYET 55 (62)
Q Consensus 14 ~~L~~a~kg~gt~e~~Li~il~-~rs~~~l~~i~~~y~~~yg~ 55 (62)
+.|...++..|.+-+-++++-+ -.+..+...+.+.|.+.|+.
T Consensus 50 ~ni~~~L~~~G~~~~dvv~~~~yl~d~~~~~~~~~v~~~~f~~ 92 (121)
T PF01042_consen 50 DNIERILAAAGASLDDVVKVTVYLTDMSDFPAVNEVWKEFFPD 92 (121)
T ss_dssp HHHHHHHHHTTS-GGGEEEEEEEESSGGGHHHHHHHHHHHSTS
T ss_pred HhhhhhhhcCCCcceeEeeeeehhhhhhhhHHHHHHHHHHhcc
Confidence 4566677888877777776533 24445577777777776653
No 17
>cd06155 eu_AANH_C_1 A group of hypothetical eukaryotic proteins, characterized by the presence of an adenine nucleotide alpha hydrolase (AANH)-like domain located N-terminal to two distinctly different YjgF-YER057c-UK114-like domains. This CD contains the first of these domains. The YjgF-YER057c-UK114 protein family is a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=44.67 E-value=25 Score=18.80 Aligned_cols=41 Identities=12% Similarity=0.346 Sum_probs=27.0
Q ss_pred HHHHHHhhcCCCCcceeeEeee-eccccccchhhHHHHHHHH
Q psy2493 14 QRLENAMAGMGTNDRTLIRIIV-TRSEIDLGDIKQDYLKMYE 54 (62)
Q Consensus 14 ~~L~~a~kg~gt~e~~Li~il~-~rs~~~l~~i~~~y~~~yg 54 (62)
+.|.+.++..|.+-+-++++-+ -.+..++..+.+.|.+.|+
T Consensus 33 ~ni~~~L~~aG~~~~dVv~~~iyl~d~~~~~~~n~~~~~~f~ 74 (101)
T cd06155 33 SKLREILQSNGLSLSDILYVTLYLRDMSDFAEVNSVYGTFFD 74 (101)
T ss_pred HHHHHHHHHcCCCHHHEEEEEEEECCHHHHHHHHHHHHHHcC
Confidence 3455566666766666665432 2445678889999988876
No 18
>cd06151 YjgF_YER057c_UK114_like_3 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=43.07 E-value=46 Score=18.47 Aligned_cols=41 Identities=15% Similarity=0.405 Sum_probs=25.9
Q ss_pred HHHHHhhcCCCCcceeeEe--eeecccc-----ccchhhHHHHHHHHH
Q psy2493 15 RLENAMAGMGTNDRTLIRI--IVTRSEI-----DLGDIKQDYLKMYET 55 (62)
Q Consensus 15 ~L~~a~kg~gt~e~~Li~i--l~~rs~~-----~l~~i~~~y~~~yg~ 55 (62)
.|...++..|.+-+-++++ .+..... ++..+.+.|.+.|+.
T Consensus 49 ni~~~L~~aG~~~~dVvk~~vyl~~~~~~~~~~~~~~~~~~~~~~f~~ 96 (126)
T cd06151 49 RIETILQSQGLTMGDVVKMRVFLVADPALDGKMDFAGFMKAYRQFFGT 96 (126)
T ss_pred HHHHHHHHcCCCHHHEEEEEEEEecCccccchhhHHHHHHHHHHHhcc
Confidence 3455667777766666644 4432222 678888888888874
No 19
>PF05303 DUF727: Protein of unknown function (DUF727); InterPro: IPR007967 This family consists of several uncharacterised eukaryotic proteins of unknown function.; PDB: 1SGO_A.
Probab=42.35 E-value=27 Score=19.41 Aligned_cols=20 Identities=20% Similarity=0.411 Sum_probs=15.7
Q ss_pred cchhhHHHHHHHHHHHHHhh
Q psy2493 42 LGDIKQDYLKMYETTLEERI 61 (62)
Q Consensus 42 l~~i~~~y~~~yg~~L~~~I 61 (62)
|..|...|++.||..|.+.+
T Consensus 85 L~~iSP~fr~~F~~~L~~kL 104 (108)
T PF05303_consen 85 LDSISPLFRKRFGEKLSQKL 104 (108)
T ss_dssp HHHH-HHHHHHHHHHHHHHH
T ss_pred HHHHCHHHHHHHHHHHHHHH
Confidence 55888899999999998754
No 20
>cd06153 YjgF_YER057c_UK114_like_5 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=39.72 E-value=42 Score=18.49 Aligned_cols=39 Identities=15% Similarity=0.267 Sum_probs=24.8
Q ss_pred HHHHHhhcCCCC-----cceee--EeeeeccccccchhhHHHHHHHH
Q psy2493 15 RLENAMAGMGTN-----DRTLI--RIIVTRSEIDLGDIKQDYLKMYE 54 (62)
Q Consensus 15 ~L~~a~kg~gt~-----e~~Li--~il~~rs~~~l~~i~~~y~~~yg 54 (62)
.|...++..|.+ -+.++ ++.+ +...++..+.+.|.+.|+
T Consensus 44 ni~~~L~~aG~~~~~~~~~dVvk~~vyl-~d~~~~~~~~~v~~~~f~ 89 (114)
T cd06153 44 NIEALLEAAGRGGGAQFLADLLRLKVYL-RDREDLPAVRAILAARLG 89 (114)
T ss_pred HHHHHHHHcCCCCCccchhheeEEEEEE-ccHHHHHHHHHHHHHHcC
Confidence 344556666665 55555 4444 445678888888888776
No 21
>PF13062 DUF3924: Protein of unknown function (DUF3924)
Probab=39.53 E-value=10 Score=18.83 Aligned_cols=20 Identities=35% Similarity=0.356 Sum_probs=14.9
Q ss_pred cccchhhHHHHHHHHHHHHH
Q psy2493 40 IDLGDIKQDYLKMYETTLEE 59 (62)
Q Consensus 40 ~~l~~i~~~y~~~yg~~L~~ 59 (62)
.-+..++++|+++.|.++.+
T Consensus 14 ekl~llkqayqkktgatise 33 (62)
T PF13062_consen 14 EKLDLLKQAYQKKTGATISE 33 (62)
T ss_pred HHHHHHHHHHHhhcCCccch
Confidence 34667899999998876543
No 22
>PF09778 Guanylate_cyc_2: Guanylylate cyclase; InterPro: IPR018616 Members of this family of proteins catalyse the conversion of guanosine triphosphate (GTP) to 3',5'-cyclic guanosine monophosphate (cGMP) and pyrophosphate.
Probab=38.30 E-value=35 Score=21.37 Aligned_cols=19 Identities=21% Similarity=0.496 Sum_probs=15.3
Q ss_pred HHHHHHHhhcCCCCcceee
Q psy2493 13 AQRLENAMAGMGTNDRTLI 31 (62)
Q Consensus 13 a~~L~~a~kg~gt~e~~Li 31 (62)
...|.+|=+..||||+.|.
T Consensus 192 ~~~ld~AR~s~GTDeDii~ 210 (212)
T PF09778_consen 192 PEALDEARKSFGTDEDIIF 210 (212)
T ss_pred HHHHHHHHhccCCCcceEE
Confidence 5667788899999999763
No 23
>KOG2027|consensus
Probab=37.43 E-value=26 Score=23.88 Aligned_cols=21 Identities=19% Similarity=0.411 Sum_probs=18.6
Q ss_pred cccchhhHHHHHHHHHHHHHh
Q psy2493 40 IDLGDIKQDYLKMYETTLEER 60 (62)
Q Consensus 40 ~~l~~i~~~y~~~yg~~L~~~ 60 (62)
.+|..|+..|-++||+++...
T Consensus 98 pEL~~i~~~f~~kYGk~f~~~ 118 (388)
T KOG2027|consen 98 PELREIRDLFVKKYGKEFVKA 118 (388)
T ss_pred HHHHHHHHHHHHHHhHHHHHH
Confidence 678899999999999998764
No 24
>cd06154 YjgF_YER057c_UK114_like_6 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=36.53 E-value=41 Score=18.42 Aligned_cols=41 Identities=15% Similarity=0.248 Sum_probs=26.6
Q ss_pred HHHHHHhhcCCCCcceeeEeee-eccccccchhhHHHHHHHH
Q psy2493 14 QRLENAMAGMGTNDRTLIRIIV-TRSEIDLGDIKQDYLKMYE 54 (62)
Q Consensus 14 ~~L~~a~kg~gt~e~~Li~il~-~rs~~~l~~i~~~y~~~yg 54 (62)
+.|...++..|.+-+-++++.+ -++..++..+.+.|.+.|+
T Consensus 51 ~ni~~~L~~aG~~~~dVvk~~vyl~d~~~~~~~~~~~~~~f~ 92 (119)
T cd06154 51 EIIEAALAEAGASLEDVVRTRMYVTDIADFEAVGRAHGEVFG 92 (119)
T ss_pred HHHHHHHHHcCCCHHHEEEEEEEECCHHHHHHHHHHHHHHcC
Confidence 3455566667776666665533 2445678888888888776
No 25
>PRK13835 conjugal transfer protein TrbH; Provisional
Probab=36.32 E-value=36 Score=20.14 Aligned_cols=18 Identities=39% Similarity=0.637 Sum_probs=15.3
Q ss_pred ccchHHHHHHHHHHhhcCC
Q psy2493 6 RDKSAYLAQRLENAMAGMG 24 (62)
Q Consensus 6 ~~~~~~~a~~L~~a~kg~g 24 (62)
++. .-|+..|.++|++||
T Consensus 65 q~~-d~Fg~aL~~aLr~~G 82 (145)
T PRK13835 65 KDT-SPFGQALEAALKGWG 82 (145)
T ss_pred ecC-cHHHHHHHHHHHhcC
Confidence 445 678999999999999
No 26
>KOG0739|consensus
Probab=36.00 E-value=31 Score=23.48 Aligned_cols=34 Identities=21% Similarity=0.340 Sum_probs=23.6
Q ss_pred HhhcCCCCcceeeEeeeeccccccc-hhhHHHHHH
Q psy2493 19 AMAGMGTNDRTLIRIIVTRSEIDLG-DIKQDYLKM 52 (62)
Q Consensus 19 a~kg~gt~e~~Li~il~~rs~~~l~-~i~~~y~~~ 52 (62)
-|+|.|.|++.+.-.=.+..+-.+. +||..|+++
T Consensus 259 QMqGVG~d~~gvLVLgATNiPw~LDsAIRRRFekR 293 (439)
T KOG0739|consen 259 QMQGVGNDNDGVLVLGATNIPWVLDSAIRRRFEKR 293 (439)
T ss_pred hhhccccCCCceEEEecCCCchhHHHHHHHHhhcc
Confidence 5799999988765444455555565 788877654
No 27
>KOG4621|consensus
Probab=35.77 E-value=32 Score=20.31 Aligned_cols=19 Identities=26% Similarity=0.447 Sum_probs=15.7
Q ss_pred HHHHHHHhhcCCCCcceee
Q psy2493 13 AQRLENAMAGMGTNDRTLI 31 (62)
Q Consensus 13 a~~L~~a~kg~gt~e~~Li 31 (62)
.+.+.+|=+..||||+.|.
T Consensus 144 ik~fEeARkSfGTDEDiLf 162 (167)
T KOG4621|consen 144 IKCFEEARKSFGTDEDILF 162 (167)
T ss_pred hhHHHHHHhccCCCcceEE
Confidence 5667888899999999774
No 28
>cd00448 YjgF_YER057c_UK114_family YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=35.73 E-value=54 Score=16.98 Aligned_cols=42 Identities=14% Similarity=0.352 Sum_probs=26.8
Q ss_pred HHHHHHhhcCCCCcceeeEeee-eccccccchhhHHHHHHHHH
Q psy2493 14 QRLENAMAGMGTNDRTLIRIIV-TRSEIDLGDIKQDYLKMYET 55 (62)
Q Consensus 14 ~~L~~a~kg~gt~e~~Li~il~-~rs~~~l~~i~~~y~~~yg~ 55 (62)
..+...++..|.+-..++++.+ -++..+...+..+|.+.|+.
T Consensus 39 ~ni~~~L~~~g~~~~~iv~~~~yv~~~~~~~~~~~~~~~~~~~ 81 (107)
T cd00448 39 ENLEAVLEAAGGSLDDVVKVTVYLTDMADFAAVNEVYDEFFGE 81 (107)
T ss_pred HHHHHHHHHcCCCHHHEEEEEEEEecHHHHHHHHHHHHHHhCC
Confidence 4455566766766555554422 24567788888888888764
No 29
>PF12652 CotJB: CotJB protein; InterPro: IPR024207 The cotJ operon proteins affect spore coat composition, and is controlled by sigma E. The genes, which include CotJB, are either required for the normal formation of the inner layers of the coat or are themselves structural components of the coat []. CotJB has been identified as a spore coat protein [].
Probab=35.39 E-value=15 Score=19.37 Aligned_cols=15 Identities=27% Similarity=0.448 Sum_probs=11.7
Q ss_pred cccchhhHHHHHHHH
Q psy2493 40 IDLGDIKQDYLKMYE 54 (62)
Q Consensus 40 ~~l~~i~~~y~~~yg 54 (62)
..+.++++.|++.||
T Consensus 40 ~~~~~l~~~Ye~~yG 54 (78)
T PF12652_consen 40 KQRKQLKKEYEKRYG 54 (78)
T ss_pred HHHHHHHHHHHHHhC
Confidence 346688888999887
No 30
>PF08587 UBA_2: Ubiquitin associated domain (UBA) ; InterPro: IPR013896 This is a UBA (ubiquitin associated) protein []. Ubiquitin is involved in intracellular proteolysis. ; GO: 0004674 protein serine/threonine kinase activity; PDB: 3H4J_B.
Probab=35.25 E-value=12 Score=17.96 Aligned_cols=27 Identities=19% Similarity=0.366 Sum_probs=10.2
Q ss_pred CCCcceeeEeeeeccc-cccchhhHHHH
Q psy2493 24 GTNDRTLIRIIVTRSE-IDLGDIKQDYL 50 (62)
Q Consensus 24 gt~e~~Li~il~~rs~-~~l~~i~~~y~ 50 (62)
|-+.+-+.+.|-+..+ .+..+|+.||.
T Consensus 14 GY~kdeI~eaL~~~~~~~~~neIkDAY~ 41 (46)
T PF08587_consen 14 GYDKDEIYEALESSEPSPQSNEIKDAYL 41 (46)
T ss_dssp ---HHHHHHHCCSSS------SSCCHHH
T ss_pred CCCHHHHHHHHHcCCCcchHHHHHHHHH
Confidence 3333333333333222 56778888885
No 31
>PRK13883 conjugal transfer protein TrbH; Provisional
Probab=35.20 E-value=39 Score=20.07 Aligned_cols=21 Identities=19% Similarity=0.211 Sum_probs=17.2
Q ss_pred eeccchHHHHHHHHHHhhcCC
Q psy2493 4 CVRDKSAYLAQRLENAMAGMG 24 (62)
Q Consensus 4 ~~~~~~~~~a~~L~~a~kg~g 24 (62)
+-++..+.|+..|.++|+++|
T Consensus 57 l~q~~~D~Fg~aL~~aLR~~G 77 (151)
T PRK13883 57 LQQPTPDAFGQALVKALRDKG 77 (151)
T ss_pred EecCCCcHHHHHHHHHHHHcC
Confidence 345667789999999999888
No 32
>PF04711 ApoA-II: Apolipoprotein A-II (ApoA-II); InterPro: IPR006801 Apolipoprotein A-II (ApoA-II) is the second major apolipoprotein of high density lipoprotein in human plasma. Mature ApoA-II is present as a dimer of two 77-amino acid chains joined by a disulphide bridge []. ApoA-II regulates many steps in HDL metabolism, and its role in coronary heart disease is unclear []. In bovine serum, the ApoA-II homologue is present in almost free form. Bovine ApoA-II shows antimicrobial activity against Escherichia coli and yeasts in phosphate buffered saline (PBS) [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region; PDB: 1L6L_W 2OU1_E.
Probab=33.78 E-value=48 Score=17.47 Aligned_cols=23 Identities=30% Similarity=0.533 Sum_probs=14.8
Q ss_pred ccccchhhHHHHH---HHHHHHHHhh
Q psy2493 39 EIDLGDIKQDYLK---MYETTLEERI 61 (62)
Q Consensus 39 ~~~l~~i~~~y~~---~yg~~L~~~I 61 (62)
+.++..+...|-+ .||++|.+-+
T Consensus 4 e~~lq~lfsqY~qt~TdYgKDL~Ekv 29 (76)
T PF04711_consen 4 EPDLQSLFSQYFQTVTDYGKDLVEKV 29 (76)
T ss_dssp SSTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHc
Confidence 3456666655653 5899987654
No 33
>cd06152 YjgF_YER057c_UK114_like_4 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=33.34 E-value=57 Score=17.95 Aligned_cols=41 Identities=15% Similarity=0.221 Sum_probs=24.8
Q ss_pred HHHHHHhhcCC-CCcceeeEe--eeecc--ccccchhhHHHHHHHH
Q psy2493 14 QRLENAMAGMG-TNDRTLIRI--IVTRS--EIDLGDIKQDYLKMYE 54 (62)
Q Consensus 14 ~~L~~a~kg~g-t~e~~Li~i--l~~rs--~~~l~~i~~~y~~~yg 54 (62)
..|..+++..| .+-+-++++ .++-- +.++..+.+.|++.|+
T Consensus 41 ~Nl~~~L~~aG~~~~~dVvk~tvyltd~~~~~~~~~~~~~~~~~f~ 86 (114)
T cd06152 41 DNVELALKAAGGKGWEQVYKVNSYHVDIKNEEAFGLMVENFKKWMP 86 (114)
T ss_pred HHHHHHHHHhCCCCHHHEEEEEEEEecCCcHHHHHHHHHHHHHHcC
Confidence 34556667667 666666644 33321 2567788888877665
No 34
>TIGR00004 endoribonuclease L-PSP, putative. This protein was described initially as an inhibitor of protein synthesis intiation but is now viewed as an endoribonuclease active on single-stranded mRNA. The cleavage of mRNA is responsible for the inhibition of protein synthesis. A role in purine regulation has also been suggested.
Probab=32.99 E-value=54 Score=17.97 Aligned_cols=40 Identities=10% Similarity=0.336 Sum_probs=24.9
Q ss_pred HHHHHHhhcCCCCcceeeEe--eeeccccccchhhHHHHHHHH
Q psy2493 14 QRLENAMAGMGTNDRTLIRI--IVTRSEIDLGDIKQDYLKMYE 54 (62)
Q Consensus 14 ~~L~~a~kg~gt~e~~Li~i--l~~rs~~~l~~i~~~y~~~yg 54 (62)
..|...++..|.+-..++++ .+ .+..++..+.+.|.+.|+
T Consensus 55 ~ni~~~L~~aG~~~~dvv~~~vyv-~~~~~~~~~~~~~~~~f~ 96 (124)
T TIGR00004 55 ENLKAILEAAGLSLDDVVKTTVFL-TDLNDFAEVNEVYGQYFD 96 (124)
T ss_pred HHHHHHHHHcCCCHHHEEEEEEEE-eChHHHHHHHHHHHHHcC
Confidence 34455666666555555544 33 345678888888888776
No 35
>PRK12461 UDP-N-acetylglucosamine acyltransferase; Provisional
Probab=31.89 E-value=14 Score=23.31 Aligned_cols=19 Identities=21% Similarity=0.406 Sum_probs=15.8
Q ss_pred cccccchhhHHHHHHHHHH
Q psy2493 38 SEIDLGDIKQDYLKMYETT 56 (62)
Q Consensus 38 s~~~l~~i~~~y~~~yg~~ 56 (62)
++.++..|+++|+..|...
T Consensus 201 ~~~~~~~~~~~~~~~~~~~ 219 (255)
T PRK12461 201 SSRAIRALKRAYKIIYRSG 219 (255)
T ss_pred CHHHHHHHHHHHHHHHhcC
Confidence 5577889999999999664
No 36
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The Map2k5 protein contains a type I PB1 domain.
Probab=30.28 E-value=50 Score=17.87 Aligned_cols=22 Identities=27% Similarity=0.350 Sum_probs=17.1
Q ss_pred EeeeeccccccchhhHHHHHHHH
Q psy2493 32 RIIVTRSEIDLGDIKQDYLKMYE 54 (62)
Q Consensus 32 ~il~~rs~~~l~~i~~~y~~~yg 54 (62)
||.+ ||..+|.+.-..|...+.
T Consensus 53 RITV-RSDeEm~AMlsyy~~~~~ 74 (91)
T cd06395 53 RITV-RSDEEMKAMLSYYCSTVM 74 (91)
T ss_pred eeEe-cchHHHHHHHHHHHHHHH
Confidence 4555 999999998888877653
No 37
>PRK11401 putative endoribonuclease L-PSP; Provisional
Probab=29.30 E-value=70 Score=17.82 Aligned_cols=41 Identities=15% Similarity=0.346 Sum_probs=26.5
Q ss_pred HHHHHHhhcCCCCcceeeEeeee-ccccccchhhHHHHHHHH
Q psy2493 14 QRLENAMAGMGTNDRTLIRIIVT-RSEIDLGDIKQDYLKMYE 54 (62)
Q Consensus 14 ~~L~~a~kg~gt~e~~Li~il~~-rs~~~l~~i~~~y~~~yg 54 (62)
+.+...++..|.+-.-++++.+- .+..++..+.+.|.+.|+
T Consensus 55 ~ni~~~L~aaG~~~~~Vvk~~vyl~d~~~~~~~~~v~~~~f~ 96 (129)
T PRK11401 55 ENVKAIVVAAGLSVGDIIKMTVFITDLNDFATINEVYKQFFD 96 (129)
T ss_pred HHHHHHHHHcCCCHHHEEEEEEEEccHHHHHHHHHHHHHHhC
Confidence 34556666677766666655332 344678888888888776
No 38
>PF08748 DUF1789: Domain of unknown function (DUF1789); InterPro: IPR014859 This entry represents a putative uncharacterised protein found in phage-related conserved hypothetical protein from Bordetella.
Probab=28.92 E-value=25 Score=20.21 Aligned_cols=44 Identities=14% Similarity=0.153 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhhcCCCCcce---eeEeeeeccccccchhhHHHHHHH
Q psy2493 10 AYLAQRLENAMAGMGTNDRT---LIRIIVTRSEIDLGDIKQDYLKMY 53 (62)
Q Consensus 10 ~~~a~~L~~a~kg~gt~e~~---Li~il~~rs~~~l~~i~~~y~~~y 53 (62)
..+++.+.+-+.||+.|+.. -+..|+...+.-..+|-.+|.+.+
T Consensus 75 ~~~ad~i~~iv~gW~ld~~fn~Enl~~L~~~yp~a~~AI~~aY~~~l 121 (128)
T PF08748_consen 75 DLNADFILEIVAGWDLDEEFNDENLELLVDNYPGAAEAIVDAYYQAL 121 (128)
T ss_pred hhhHHHHHHHHhccCCCCccCHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence 45899999999999988642 123455556666667777777654
No 39
>PF03398 Ist1: Regulator of Vps4 activity in the MVB pathway; InterPro: IPR005061 This is a eukaryotic protein family of unknown function.; PDB: 3GGZ_B 3GGY_B 3FRR_A 3FRS_A.
Probab=28.33 E-value=18 Score=21.45 Aligned_cols=21 Identities=14% Similarity=0.362 Sum_probs=17.2
Q ss_pred cccchhhHHHHHHHHHHHHHh
Q psy2493 40 IDLGDIKQDYLKMYETTLEER 60 (62)
Q Consensus 40 ~~l~~i~~~y~~~yg~~L~~~ 60 (62)
.+|..|++.|..+||+++...
T Consensus 103 pEL~~vr~~l~~kyG~~f~~~ 123 (165)
T PF03398_consen 103 PELQEVRKQLAEKYGKEFVEA 123 (165)
T ss_dssp CCHHHHHHHHHCCC-HHHHHH
T ss_pred hhHHHHHHHHHHHhCHHHHHH
Confidence 678899999999999998643
No 40
>COG3324 Predicted enzyme related to lactoylglutathione lyase [General function prediction only]
Probab=28.10 E-value=21 Score=20.55 Aligned_cols=21 Identities=33% Similarity=0.368 Sum_probs=18.6
Q ss_pred cccchhhHHHHHHHHHHHHHh
Q psy2493 40 IDLGDIKQDYLKMYETTLEER 60 (62)
Q Consensus 40 ~~l~~i~~~y~~~yg~~L~~~ 60 (62)
.|+.+.+.-|.+.||.++++.
T Consensus 18 ~D~~ra~~FY~~vFgW~~~~~ 38 (127)
T COG3324 18 SDLERAKAFYEKVFGWTFEDY 38 (127)
T ss_pred CCHHHHHHHHHHhhCceeccc
Confidence 679999999999999998764
No 41
>KOG1769|consensus
Probab=27.96 E-value=39 Score=18.77 Aligned_cols=18 Identities=11% Similarity=0.205 Sum_probs=15.4
Q ss_pred cccchhhHHHHHHHHHHH
Q psy2493 40 IDLGDIKQDYLKMYETTL 57 (62)
Q Consensus 40 ~~l~~i~~~y~~~yg~~L 57 (62)
..|.++.++|.++-|.+.
T Consensus 41 t~LkKLM~aYc~r~Gl~~ 58 (99)
T KOG1769|consen 41 TPLKKLMKAYCERQGLSM 58 (99)
T ss_pred ChHHHHHHHHHHHcCCcc
Confidence 569999999999988765
No 42
>PF13373 DUF2407_C: DUF2407 C-terminal domain
Probab=26.81 E-value=25 Score=20.51 Aligned_cols=18 Identities=17% Similarity=0.453 Sum_probs=16.1
Q ss_pred ccccccchhhHHHHHHHH
Q psy2493 37 RSEIDLGDIKQDYLKMYE 54 (62)
Q Consensus 37 rs~~~l~~i~~~y~~~yg 54 (62)
=|+.|+..+|..|.+.|+
T Consensus 11 FS~~eI~~LR~QF~~~~~ 28 (140)
T PF13373_consen 11 FSPEEIQDLRSQFHSIYG 28 (140)
T ss_pred CCHHHHHHHHHHHHHHhc
Confidence 478899999999999998
No 43
>PRK15058 cytochrome b562; Provisional
Probab=26.26 E-value=23 Score=20.54 Aligned_cols=15 Identities=27% Similarity=0.434 Sum_probs=10.1
Q ss_pred cccchhhHHHHHHHH
Q psy2493 40 IDLGDIKQDYLKMYE 54 (62)
Q Consensus 40 ~~l~~i~~~y~~~yg 54 (62)
.++..+|+.|+++|+
T Consensus 114 ~~l~~lR~eYHkkyr 128 (128)
T PRK15058 114 EQLKTTRNAYHKKYR 128 (128)
T ss_pred HHHHHHHHHHHHhcC
Confidence 456677777777763
No 44
>PF10012 DUF2255: Uncharacterized protein conserved in bacteria (DUF2255); InterPro: IPR016888 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=26.01 E-value=17 Score=20.69 Aligned_cols=18 Identities=17% Similarity=0.108 Sum_probs=14.9
Q ss_pred cccccchhhHHHHHHHHH
Q psy2493 38 SEIDLGDIKQDYLKMYET 55 (62)
Q Consensus 38 s~~~l~~i~~~y~~~yg~ 55 (62)
.+.....|-.+|..+|+.
T Consensus 79 d~~~~~~iD~AYr~KY~~ 96 (116)
T PF10012_consen 79 DPALNDAIDAAYRAKYGG 96 (116)
T ss_pred CHHHHHHHHHHHHHhcCC
Confidence 445567999999999987
No 45
>cd03074 PDI_b'_Calsequestrin_C Protein Disulfide Isomerase (PDIb') family, Calsequestrin subfamily, C-terminal TRX-fold domain; Calsequestrin is the major calcium storage protein in the sarcoplasmic reticulum (SR) of skeletal and cardiac muscle. It stores calcium ions in sufficient quantities (up to 20 mM) to allow repetitive contractions and is essential to maintain movement, respiration and heart beat. A missense mutation in human cardiac calsequestrin is associated with catecholamine-induced polymorphic ventricular tachycardia (CPVT), a rare disease characterized by seizures or sudden death in response to physiologic or emotional stress. Calsequestrin is a highly acidic protein with up to 50 calcium binding sites formed simply by the clustering of two or more acidic residues. The monomer contains three redox inactive TRX-fold domains. Calsequestrin is condensed as a linear polymer in the SR lumen and is membrane-anchored through binding with intra-membrane proteins triadin, junctin
Probab=25.96 E-value=1.4e+02 Score=17.11 Aligned_cols=51 Identities=18% Similarity=0.148 Sum_probs=33.7
Q ss_pred cchHHHHHHHHHHhhcCCCCcceeeEeeeeccccccchhhHHHHHHHHHHHHH
Q psy2493 7 DKSAYLAQRLENAMAGMGTNDRTLIRIIVTRSEIDLGDIKQDYLKMYETTLEE 59 (62)
Q Consensus 7 ~~~~~~a~~L~~a~kg~gt~e~~Li~il~~rs~~~l~~i~~~y~~~yg~~L~~ 59 (62)
+|-.|.=-.|-+.+..-.|+...|-=|.+ .+.+...+...+++.||.+|+.
T Consensus 32 dpdG~eFl~ilk~vA~~nt~np~LsiIWI--DPD~FPllv~yWektF~IDl~~ 82 (120)
T cd03074 32 DPDGYEFLEILKEVARDNTDNPDLSIIWI--DPDDFPLLVPYWEKTFGIDLFR 82 (120)
T ss_pred CccHHHHHHHHHHHHHhcCcCCCceEEEE--CCccCchhhHHHHhhcCcccCC
Confidence 44444444444555555677666655555 4677888888889999988863
No 46
>PF03531 SSrecog: Structure-specific recognition protein (SSRP1); InterPro: IPR000969 Human structure-specific recognition protein, SSRP1, [] binds specifically to DNA modified with the anti-cancer drug cisplatin. An 81kDa protein is predicted, containing several highly-charged domains and a stretch of 75 residues that share 47% identity with a portion of the high mobility group (HMG) protein HMG1. This HMG box probably constitutes the structure recognition element for cisplatin-modified DNA, the probable recognition motif being the local duplex unwinding and bending that occurs on formation of intra-strand cross-links []. SSRP1 is the human homologue of a recently identified mouse protein that binds to recombination signal sequences []. These sequences have been postulated to form stem-loop structures, further implicating local bends and unwinding in DNA as a recognition target for HMG-box proteins. A Drosophila melanogaster cDNA encoding an HMG-box-containing protein has also been isolated [, ]. This protein shares 50% sequence identity with human SSRP1. In vitro binding studies using Drosophila SSRP showed that the protein binds to single-stranded DNA and RNA, with highest affinity for nucleotides G and U. Comparison of the predicted amino acid sequences among SSRP family members reveals 48% identity, with structural conservation in the C terminus of the HMG box, as well as domains of highly charged residues. The most highly conserved regions lie in the poorly understood N terminus, suggesting that this portion of the protein is critical for its function []. This entry contains Pob3 Q04636 from SWISSPROT, which is a subunit of the heterodimeric yeast FACT complex (Spt16p (IPR013953 from INTERPRO)-Pob3p) []. The FACT complex facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ].; GO: 0003677 DNA binding, 0005634 nucleus; PDB: 3F5R_A 2GCL_B 2GCJ_D.
Probab=24.20 E-value=36 Score=21.39 Aligned_cols=21 Identities=38% Similarity=0.561 Sum_probs=14.6
Q ss_pred ccccchhhHHHHHHHHHHHHH
Q psy2493 39 EIDLGDIKQDYLKMYETTLEE 59 (62)
Q Consensus 39 ~~~l~~i~~~y~~~yg~~L~~ 59 (62)
+.|...|++.+++.|+.+|++
T Consensus 6 ~~D~~~L~~~~k~~y~i~le~ 26 (222)
T PF03531_consen 6 EEDFEKLKKFFKKNYDIELEE 26 (222)
T ss_dssp GGGHHHHHHHHHHHH----EE
T ss_pred HHHHHHHHHHHHHHcCCCCcc
Confidence 567889999999999999875
No 47
>PRK09786 endodeoxyribonuclease RUS; Reviewed
Probab=23.11 E-value=1.4e+02 Score=16.84 Aligned_cols=28 Identities=18% Similarity=0.277 Sum_probs=21.1
Q ss_pred HHHHHHHHhhcCC--CCcceeeEeeeeccc
Q psy2493 12 LAQRLENAMAGMG--TNDRTLIRIIVTRSE 39 (62)
Q Consensus 12 ~a~~L~~a~kg~g--t~e~~Li~il~~rs~ 39 (62)
..+.+.+||.|.| .|+..+.++.+.+-.
T Consensus 74 ~~K~l~DaL~~~g~~~DD~QI~~l~~~K~y 103 (120)
T PRK09786 74 LQKAAFDALTKAGFWLDDAQVVDYRVVKMP 103 (120)
T ss_pred HHHHHHHhhcCCeEEcCCceeEEEEEEEee
Confidence 4677888998866 588888888876654
No 48
>PF10788 DUF2603: Protein of unknown function (DUF2603); InterPro: IPR019724 This entry represents a conserved protein in epsilon-Proteobacteria. The function is not known.
Probab=22.95 E-value=92 Score=18.28 Aligned_cols=20 Identities=25% Similarity=0.403 Sum_probs=16.4
Q ss_pred cchhhHHHHHHHHHHHHHhh
Q psy2493 42 LGDIKQDYLKMYETTLEERI 61 (62)
Q Consensus 42 l~~i~~~y~~~yg~~L~~~I 61 (62)
+..+++++++.|.--|+.+|
T Consensus 65 i~~~k~~~~E~f~lkLEk~I 84 (137)
T PF10788_consen 65 IESLKNAQKENFELKLEKDI 84 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44788899999998888876
No 49
>cd06156 eu_AANH_C_2 A group of hypothetical eukaryotic proteins, characterized by the presence of an adenine nucleotide alpha hydrolase (AANH)-like domain located N-terminal to two distinctly different YjgF-YER057c-UK114-like domains. This CD contains the second of these domains. The YjgF-YER057c-UK114 protein family is a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=22.87 E-value=1.5e+02 Score=16.35 Aligned_cols=39 Identities=18% Similarity=0.088 Sum_probs=23.2
Q ss_pred HHHHhhcCCCCcceeeEeeeeccccccchhhHHHHHHHHH
Q psy2493 16 LENAMAGMGTNDRTLIRIIVTRSEIDLGDIKQDYLKMYET 55 (62)
Q Consensus 16 L~~a~kg~gt~e~~Li~il~~rs~~~l~~i~~~y~~~yg~ 55 (62)
|...++..|.++-+-+++.++ +..++..+.+.|.+.|+.
T Consensus 42 i~~vL~~aG~~dVvk~~iyl~-d~~~~~~~~~v~~~~f~~ 80 (118)
T cd06156 42 LERVAKAMNVQWVLAAVCYVT-DESSVPIARSAWSKYCSE 80 (118)
T ss_pred HHHHHHHcCCCCEEEEEEEEc-ChHHHHHHHHHHHHHhcC
Confidence 444556666733333355443 346778888888887763
No 50
>PF03705 CheR_N: CheR methyltransferase, all-alpha domain; InterPro: IPR022641 CheR proteins are part of the chemotaxis signaling mechanism which methylates the chemotaxis receptor at specific glutamate residues. This entry refers to the N-terminal domain of the CherR-type MCP methyltransferases, which are found in bacteria, archaea and green plants. This entry is found in association with PF01739 from PFAM. Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. Flagellated bacteria swim towards favourable chemicals and away from deleterious ones. Sensing of chemoeffector gradients involves chemotaxis receptors, transmembrane (TM) proteins that detect stimuli through their periplasmic domains and transduce the signals via their cytoplasmic domains []. Signalling outputs from these receptors are influenced both by the binding of the chemoeffector ligand to their periplasmic domains and by methylation of specific glutamate residues on their cytoplasmic domains. Methylation is catalysed by CheR, an S-adenosylmethionine-dependent methyltransferase [], which reversibly methylates specific glutamate residues within a coiled coil region, to form gamma-glutamyl methyl ester residues [, ]. The structure of the Salmonella typhimurium chemotaxis receptor methyltransferase CheR, bound to S-adenosylhomocysteine, has been determined to a resolution of 2.0 A []. The structure reveals CheR to be a two-domain protein, with a smaller N-terminal helical domain linked via a single polypeptide connection to a larger C-terminal alpha/beta domain. The C-terminal domain has the characteristics of a nucleotide-binding fold, with an insertion of a small anti-parallel beta-sheet subdomain. The S-adenosylhomocysteine-binding site is formed mainly by the large domain, with contributions from residues within the N-terminal domain and the linker region [].; PDB: 1AF7_A 1BC5_A.
Probab=22.56 E-value=43 Score=15.68 Aligned_cols=19 Identities=5% Similarity=0.097 Sum_probs=7.9
Q ss_pred cccchhhHHHHHHHHHHHH
Q psy2493 40 IDLGDIKQDYLKMYETTLE 58 (62)
Q Consensus 40 ~~l~~i~~~y~~~yg~~L~ 58 (62)
.++..+...-.+.+|.+|.
T Consensus 3 ~~f~~~~~~i~~~~Gi~l~ 21 (57)
T PF03705_consen 3 AEFERFRELIYRRTGIDLS 21 (57)
T ss_dssp HHHHHHHHHHHHHH-----
T ss_pred HHHHHHHHHHHHHHCCCCc
Confidence 4455555555666665554
No 51
>PF08771 Rapamycin_bind: Rapamycin binding domain; InterPro: IPR009076 Rapamycin and FK506 are potent immunosuppressive agents that bind to the FK506-binding protein (FKBP12), inhibiting its peptidyl-prolyl isomerase activity. The rapamycin-FKBP12 complex can then bind to and inhibit the FKBP12-rapamycin-associated protein (FRAP) in humans and RAFT1 in rats, causing cell-cycle arrest []. The FK506-FKBP12 complex cannot bind FRAP, but can bind to and inhibit calcineurin. Rapamycin is able to bind to two proteins, FKBP12 and FRAP, by simultaneously occupying two hydrophobic binding pockets, thereby linking these two proteins together to form a dimer []. The structure of the FKBP12-rapamycin-binding domain of FRAP consists of a core bundle of four helices arranged up-and-down in a left-handed twist. FRAP has been shown to interact in vitro with CLIP-170, a protein involved in microtubule organisation and function []. FRAP is thought to act as a kinase to phosphorylate CLIP-170, thereby regulating its binding to microtubules. FRAP is also thought to cooperate with p85/p110 phosphatidylinositol 3-kinase (PI3K) to induce the activation of the serine/threonine kinase p70 S6 kinase (p70S6K), which in turn phosphorylates the 40S ribosomal protein S6, thereby altering the translation of ribosomal proteins and translation elongation factors [].; GO: 0016772 transferase activity, transferring phosphorus-containing groups; PDB: 2NPU_A 2RSE_B 4FAP_B 1AUE_A 2GAQ_A 1FAP_B 2FAP_B 3FAP_B 1NSG_B.
Probab=22.24 E-value=1.1e+02 Score=16.67 Aligned_cols=13 Identities=15% Similarity=0.462 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHh
Q psy2493 48 DYLKMYETTLEER 60 (62)
Q Consensus 48 ~y~~~yg~~L~~~ 60 (62)
.|.+.||.+|.++
T Consensus 55 ~F~~~fg~~L~~A 67 (100)
T PF08771_consen 55 SFAQAFGRDLQEA 67 (100)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 5889999998764
No 52
>PF06854 Phage_Gp15: Bacteriophage Gp15 protein; InterPro: IPR009660 This entry describes Gp15 from Bacteriophage A500 (Listeria phage A500), related proteins in other bacteriophage, and prophage regions of bacterial genomes. The function is unknown.
Probab=21.99 E-value=44 Score=20.28 Aligned_cols=22 Identities=32% Similarity=0.395 Sum_probs=18.4
Q ss_pred ccccchhhHHHHHHHHHHHHHh
Q psy2493 39 EIDLGDIKQDYLKMYETTLEER 60 (62)
Q Consensus 39 ~~~l~~i~~~y~~~yg~~L~~~ 60 (62)
+.|-..|-.+|.+.||.+|.+.
T Consensus 108 ~~Da~~IyasF~~~YgIdL~~~ 129 (183)
T PF06854_consen 108 EQDADYIYASFLQQYGIDLIEE 129 (183)
T ss_pred HHhHHHHHHHHHHHhCccHHHh
Confidence 4677899999999999999543
No 53
>PF07283 TrbH: Conjugal transfer protein TrbH; InterPro: IPR010837 This entry represents TrbH, a bacterial conjugal transfer protein approximately 150 residues long. TrbH contains a putative membrane lipoprotein lipid attachment site [].
Probab=21.95 E-value=89 Score=17.83 Aligned_cols=19 Identities=32% Similarity=0.454 Sum_probs=15.8
Q ss_pred ccchHHHHHHHHHHhhcCC
Q psy2493 6 RDKSAYLAQRLENAMAGMG 24 (62)
Q Consensus 6 ~~~~~~~a~~L~~a~kg~g 24 (62)
+....-|+..|.++|+++|
T Consensus 31 q~~~d~Fg~aL~~~LR~~G 49 (121)
T PF07283_consen 31 QKDPDPFGQALENALRAKG 49 (121)
T ss_pred cCCCChHHHHHHHHHHhcC
Confidence 4566678999999999888
No 54
>PRK10907 intramembrane serine protease GlpG; Provisional
Probab=21.58 E-value=2e+02 Score=18.54 Aligned_cols=48 Identities=17% Similarity=0.126 Sum_probs=32.6
Q ss_pred eeccchHHHHHHHHHHhhcCCCCccee----eEeeeeccccccchhhHHHHHH
Q psy2493 4 CVRDKSAYLAQRLENAMAGMGTNDRTL----IRIIVTRSEIDLGDIKQDYLKM 52 (62)
Q Consensus 4 ~~~~~~~~~a~~L~~a~kg~gt~e~~L----i~il~~rs~~~l~~i~~~y~~~ 52 (62)
...-|...+|+.+.+.|+..|.+-+.- ..+.+ .++.+..+++++|++-
T Consensus 4 ~~~~~~~~~a~~f~dyl~~~~i~~~~~~~~~~~lwl-~d~~~~~~~~~~~~~f 55 (276)
T PRK10907 4 ITSFSNPRLAQAFVDYMATQGVILTIQQHNQSDIWL-ADESQAERVRAELARF 55 (276)
T ss_pred hhcCCCHHHHHHHHHHHHHCCCcEEEecCCceEEEe-cCHHHHHHHHHHHHHH
Confidence 345577789999999998877544321 23444 4677888888887653
No 55
>KOG4001|consensus
Probab=21.06 E-value=92 Score=19.83 Aligned_cols=24 Identities=17% Similarity=0.380 Sum_probs=18.1
Q ss_pred eeeccccccchhhHHHHHHHHHHH
Q psy2493 34 IVTRSEIDLGDIKQDYLKMYETTL 57 (62)
Q Consensus 34 l~~rs~~~l~~i~~~y~~~yg~~L 57 (62)
++-|+..++.+-..||+..|--+.
T Consensus 150 ll~rvRDEIrMt~aAYqtlyeSsv 173 (259)
T KOG4001|consen 150 LLVRVRDEIRMTFAAYQTLYESSV 173 (259)
T ss_pred eEEEehHHHHHHHHHHHHHHHHHH
Confidence 334666778889999999987664
No 56
>cd02906 Macro_1 Macro domain, Unknown family 1. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly ADP-ribose as a ligand. Previously identified as displaying an Appr-1"-p (ADP-ribose-1"-monophosphate) processing activity, the macro domain may play roles in distinct ADP-ribose pathways, such as the ADP-ribosylation of proteins, an important post-translational modification which occurs in DNA repair, transcription, chromatin biology, and long-term memory formation, among other processes. This family is composed of uncharacterized proteins containing a macro domain, either as a stand-alone domain or in addition to a C-terminal SIR2 (silent information regulator 2) domain.
Probab=21.06 E-value=1.2e+02 Score=17.41 Aligned_cols=30 Identities=17% Similarity=0.102 Sum_probs=24.1
Q ss_pred eEeeeeccccccc--------hhhHHHHHHHHHHHHHh
Q psy2493 31 IRIIVTRSEIDLG--------DIKQDYLKMYETTLEER 60 (62)
Q Consensus 31 i~il~~rs~~~l~--------~i~~~y~~~yg~~L~~~ 60 (62)
.+.+++.++..+. -|..++.+..|..|.+.
T Consensus 14 ~DaIVNaaN~~l~~~~g~~~ggv~~aI~~~aG~~l~~e 51 (147)
T cd02906 14 VDAIVNAANSTLLGCFQPLHRCIDNIIHTFAGPQLRQA 51 (147)
T ss_pred CCEEECCCCcccCcCcCCCCCcHHHHHHHHhCHHHHHH
Confidence 5788888888774 48889999999888765
No 57
>PF09349 OHCU_decarbox: OHCU decarboxylase; InterPro: IPR018020 The proteins in this entry are OHCU decarboxylase, an enzyme of the purine catabolism that catalyses the conversion of OHCU into S(+)-allantoin []; it is the third step of the conversion of uric acid (a purine derivative) to allantoin. Step one is catalysed by urate oxidase (IPR002042 from INTERPRO) and step two is catalysed by hydroxyisourate hydrolase (IPR000895 from INTERPRO). ; PDB: 3O7I_B 3O7H_B 3O7J_A 3O7K_A 2Q37_A 2O70_B 2O73_C 2O74_C 2O8I_A.
Probab=20.67 E-value=36 Score=19.93 Aligned_cols=18 Identities=17% Similarity=0.392 Sum_probs=13.0
Q ss_pred cccchhhHHHHHHHHHHH
Q psy2493 40 IDLGDIKQDYLKMYETTL 57 (62)
Q Consensus 40 ~~l~~i~~~y~~~yg~~L 57 (62)
.++..+.++|+++||-..
T Consensus 97 ~~L~~lN~~Y~~kFGf~F 114 (159)
T PF09349_consen 97 AELAALNQAYEEKFGFPF 114 (159)
T ss_dssp HHHHHHHHHHHHHHSS--
T ss_pred HHHHHHHHHHHHHcCCce
Confidence 346788889999998654
No 58
>cd05312 NAD_bind_1_malic_enz NAD(P) binding domain of malic enzyme (ME), subgroup 1. Malic enzyme (ME), a member of the amino acid dehydrogenase (DH)-like domain family, catalyzes the oxidative decarboxylation of L-malate to pyruvate in the presence of cations (typically Mg++ or Mn++) with the concomitant reduction of cofactor NAD+ or NADP+. ME has been found in all organisms, and plays important roles in diverse metabolic pathways such as photosynthesis and lipogenesis. This enzyme generally forms homotetramers. The conversion of malate to pyruvate by ME typically involves oxidation of malate to produce oxaloacetate, followed by decarboxylation of oxaloacetate to produce pyruvate and CO2. This subfamily consists of eukaryotic and bacterial ME. Amino acid DH-like NAD(P)-binding domains are members of the Rossmann fold superfamily and include glutamate, leucine, and phenylalanine DHs, methylene tetrahydrofolate DH, methylene-tetrahydromethanopterin DH, methylene-tetrahydropholate DH
Probab=20.17 E-value=1.6e+02 Score=19.14 Aligned_cols=50 Identities=24% Similarity=0.373 Sum_probs=27.6
Q ss_pred HHHHHHHHhhcCCCCc-ceeeEe-------eeeccccccchhhHHHHHHHH----HHHHHhh
Q psy2493 12 LAQRLENAMAGMGTND-RTLIRI-------IVTRSEIDLGDIKQDYLKMYE----TTLEERI 61 (62)
Q Consensus 12 ~a~~L~~a~kg~gt~e-~~Li~i-------l~~rs~~~l~~i~~~y~~~yg----~~L~~~I 61 (62)
-|+.|..+|...|-++ +..-+| +++.+..++...+..|-+... .+|.+.|
T Consensus 40 ia~ll~~~~~~~G~~~eeA~~~i~~vD~~Gll~~~r~~l~~~~~~~a~~~~~~~~~~L~e~i 101 (279)
T cd05312 40 IADLIVSAMVREGLSEEEARKKIWLVDSKGLLTKDRKDLTPFKKPFARKDEEKEGKSLLEVV 101 (279)
T ss_pred HHHHHHHHHHHcCCChhhccCeEEEEcCCCeEeCCCCcchHHHHHHHhhcCcccCCCHHHHH
Confidence 5778888876555422 222122 334444557677767766543 4666655
No 59
>PF13112 DUF3965: Protein of unknown function (DUF3965)
Probab=20.05 E-value=1.4e+02 Score=19.22 Aligned_cols=28 Identities=18% Similarity=0.305 Sum_probs=22.8
Q ss_pred chHHHHHHHHHHhhcCCCCcceeeEeee
Q psy2493 8 KSAYLAQRLENAMAGMGTNDRTLIRIIV 35 (62)
Q Consensus 8 ~~~~~a~~L~~a~kg~gt~e~~Li~il~ 35 (62)
...|.++.|--.+||.|-.|+.+..-+.
T Consensus 211 qhayyceel~yickgi~~KeeilrdY~F 238 (291)
T PF13112_consen 211 QHAYYCEELMYICKGIEYKEEILRDYMF 238 (291)
T ss_pred hHHHHHHHHHHHHcCcChHHHHhhceee
Confidence 3568899999999999999998876544
Done!