Query psy4197
Match_columns 124
No_of_seqs 59 out of 61
Neff 4.4
Searched_HMMs 46136
Date Fri Aug 16 19:18:56 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4197.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4197hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3264|consensus 100.0 1.6E-51 3.4E-56 325.2 4.0 121 3-123 93-216 (221)
2 PF09637 Med18: Med18 protein; 99.9 2.4E-26 5.2E-31 184.1 13.1 115 3-118 120-247 (250)
3 TIGR00318 cyaB adenylyl cyclas 96.1 0.091 2E-06 39.9 9.8 81 10-105 74-158 (174)
4 COG1437 CyaB Adenylate cyclase 94.1 0.58 1.3E-05 37.0 9.1 80 11-105 76-159 (178)
5 cd07890 CYTH-like_AC_IV-like A 91.8 2.5 5.4E-05 31.4 9.3 78 12-105 76-155 (169)
6 PHA00432 internal virion prote 81.6 1.2 2.6E-05 33.9 2.3 30 23-52 106-135 (137)
7 PLN02318 phosphoribulokinase/u 73.0 22 0.00048 33.4 8.2 53 9-61 319-371 (656)
8 cd07758 ThTPase Thiamine Triph 56.0 69 0.0015 24.8 7.1 69 22-105 102-176 (196)
9 PRK14644 hypothetical protein; 54.7 13 0.00029 27.8 2.8 60 27-93 7-75 (136)
10 PF01928 CYTH: CYTH domain; I 54.0 84 0.0018 22.9 7.1 71 21-105 96-168 (185)
11 PF10120 Aldolase_2: Putative 48.9 13 0.00028 28.8 2.0 25 11-35 81-105 (170)
12 PF14814 UB2H: Bifunctional tr 46.3 45 0.00097 22.6 4.1 25 21-45 9-33 (85)
13 PF09010 AsiA: Anti-Sigma Fact 44.1 12 0.00026 26.9 1.0 14 22-35 31-44 (91)
14 COG0096 RpsH Ribosomal protein 40.4 43 0.00094 25.4 3.6 54 12-65 21-84 (132)
15 TIGR03515 GldC gliding motilit 39.6 19 0.00041 26.6 1.5 19 88-106 84-102 (108)
16 COG1992 Uncharacterized conser 36.8 31 0.00067 27.5 2.4 24 12-35 89-112 (181)
17 TIGR02914 EpsI_fam EpsI family 35.8 49 0.0011 24.7 3.3 35 74-108 135-170 (174)
18 PF02021 UPF0102: Uncharacteri 33.8 92 0.002 21.5 4.2 30 24-57 6-35 (93)
19 cd03421 SirA_like_N SirA_like_ 33.4 41 0.00088 21.2 2.2 22 18-39 35-56 (67)
20 PF02737 3HCDH_N: 3-hydroxyacy 33.1 64 0.0014 24.4 3.6 32 73-105 140-171 (180)
21 cd06587 Glo_EDI_BRP_like This 32.0 1.2E+02 0.0026 18.4 4.3 38 21-58 9-50 (112)
22 PF08872 KGK: KGK domain; Int 31.2 47 0.001 24.3 2.5 25 32-56 64-89 (114)
23 PTZ00167 RNA polymerase subuni 30.2 47 0.001 25.5 2.4 22 35-56 83-109 (144)
24 PF08530 PepX_C: X-Pro dipepti 28.8 67 0.0014 24.4 3.1 28 33-60 154-182 (218)
25 PRK14686 hypothetical protein; 28.7 66 0.0014 23.3 2.9 28 24-55 15-42 (119)
26 smart00658 RPOL8c RNA polymera 27.9 62 0.0013 24.8 2.7 21 36-56 86-113 (143)
27 PF11984 DUF3485: Protein of u 27.8 79 0.0017 23.7 3.3 35 75-109 168-202 (206)
28 PRK08573 phosphomethylpyrimidi 27.0 56 0.0012 28.3 2.6 25 11-35 355-379 (448)
29 PF13114 RecO_N_2: RecO N term 26.6 39 0.00084 23.1 1.3 15 29-43 40-54 (71)
30 PRK14677 hypothetical protein; 26.0 1.1E+02 0.0023 22.0 3.5 30 24-57 10-39 (107)
31 PRK07066 3-hydroxybutyryl-CoA 25.4 92 0.002 26.2 3.5 36 73-109 145-182 (321)
32 smart00733 Mterf Mitochondrial 25.3 47 0.001 16.6 1.2 12 23-34 20-31 (31)
33 PRK14684 hypothetical protein; 25.0 1.1E+02 0.0024 22.3 3.5 29 24-56 16-44 (120)
34 PRK14676 hypothetical protein; 24.4 1E+02 0.0022 22.4 3.2 29 24-56 17-45 (117)
35 PF01206 TusA: Sulfurtransfera 23.9 1E+02 0.0022 19.3 2.8 17 18-34 37-53 (70)
36 TIGR00252 conserved hypothetic 23.9 1.1E+02 0.0025 22.2 3.4 29 24-56 16-44 (119)
37 TIGR00133 gatB glutamyl-tRNA(G 23.9 2.8E+02 0.0061 25.0 6.4 32 75-109 149-180 (478)
38 COG1780 NrdI Protein involved 23.8 69 0.0015 24.7 2.3 32 18-49 8-53 (141)
39 PHA02881 hypothetical protein; 22.8 12 0.00026 28.8 -2.0 34 21-54 70-104 (161)
40 PRK14674 hypothetical protein; 22.4 1.3E+02 0.0028 22.5 3.5 30 23-56 14-43 (133)
41 cd04115 Rab33B_Rab33A Rab33B/R 22.1 1.4E+02 0.0031 21.1 3.6 29 77-105 141-169 (170)
42 PTZ00480 serine/threonine-prot 22.0 1.4E+02 0.003 25.4 4.0 38 21-58 231-271 (320)
43 PRK14678 hypothetical protein; 22.0 1.1E+02 0.0024 22.3 3.0 29 24-56 16-44 (120)
44 PF09409 PUB: PUB domain; Int 21.8 78 0.0017 21.1 2.0 17 22-38 47-63 (87)
45 PF09893 DUF2120: Uncharacteri 21.8 25 0.00054 27.2 -0.4 41 6-46 74-124 (146)
46 PF08608 Wyosine_form: Wyosine 21.7 1E+02 0.0022 20.2 2.5 30 78-109 5-45 (62)
47 TIGR03399 RNA_3prim_cycl RNA 3 21.6 3.6E+02 0.0078 22.8 6.4 36 25-60 136-172 (326)
48 PF04023 FeoA: FeoA domain; I 21.6 1.8E+02 0.0039 18.2 3.6 35 21-55 21-55 (74)
49 PTZ00244 serine/threonine-prot 21.3 1E+02 0.0022 25.7 3.0 36 22-57 225-263 (294)
50 PRK12497 hypothetical protein; 21.3 1.1E+02 0.0024 21.9 2.9 29 24-56 16-44 (119)
51 cd01523 RHOD_Lact_B Member of 21.0 91 0.002 20.5 2.2 35 7-44 61-95 (100)
52 PRK14675 hypothetical protein; 20.9 1.7E+02 0.0037 21.4 3.8 30 24-57 18-47 (125)
53 PRK14688 hypothetical protein; 20.0 1.6E+02 0.0034 21.6 3.5 29 24-56 16-44 (121)
No 1
>KOG3264|consensus
Probab=100.00 E-value=1.6e-51 Score=325.19 Aligned_cols=121 Identities=55% Similarity=0.869 Sum_probs=113.9
Q ss_pred CCCCCCceeeeeeeEeeccccHHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEEEeeeecCCCCCC-CCCCccCCceEEE
Q psy4197 3 VGDKARPTIVRSSIDVACSCTVVEFLTEMGCRMDFEYISRGYMFRKGRMKILVSKIFKMSQGKPSD-SGVEPISQSYLVE 81 (124)
Q Consensus 3 ~gd~~~~~lVRs~vdv~~S~n~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs~i~k~~~~~~~~-~~~e~~s~s~LVE 81 (124)
.||++||||||||||+++|+|+++||++|||||||||+++||+|+||||||+||+.+++..||..+ +..+++|+|||||
T Consensus 93 ~gd~~~ptlVRn~id~~~S~n~l~~~~~lG~rlDhEy~akG~lf~kgrmkI~vs~l~~~~~pg~~d~~s~~pvS~sylve 172 (221)
T KOG3264|consen 93 RGDDQRPTLVRNCIDSAVSKNALRFLYELGFRLDHEYLAKGFLFRKGRMKISVSKLSVIKVPGVHDIDSAEPVSPSYLVE 172 (221)
T ss_pred cccccccHHHHHHHHHHHhhhHHHHHHHhcccccHHHHhhhhhhcccceEEEEEEEEEeccCcccccccccccCcccEEE
Confidence 479999999999999999999999999999999999999999999999999999999998885554 3789999999999
Q ss_pred EEeeCCCCCchH--HHHHHHHHHhcccceeeecCCccccccCCC
Q psy4197 82 LSILAPGGQDVI--GEDMKAFAEQLKPLVQLEKIDYKRLPLSMA 123 (124)
Q Consensus 82 iSvlap~~~d~~--a~~ir~FAE~L~Plv~L~K~d~~~l~~s~a 123 (124)
|||+||+|+||+ |++||+|||||+|||||+|+||||++.-||
T Consensus 173 lsV~aPa~~E~~~va~~mr~FaeqL~PLVhleKidy~r~m~p~~ 216 (221)
T KOG3264|consen 173 LSVVAPAGQENYEVAAAMRSFAEQLKPLVHLEKIDYKRLMVPTA 216 (221)
T ss_pred EEEecCCccchhhHHHHHHHHHHHhhhhhccccCChhhcccccc
Confidence 999999999955 999999999999999999999999987765
No 2
>PF09637 Med18: Med18 protein; InterPro: IPR019095 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. Med18 is one subunit of the Mediator complex and a component of the head module that is involved in stimulating basal RNA polymerase II (PolII) transcription. Med18 consists of an eight-stranded beta-barrel with a central pore and three flanking helices. It complexes with Med8 and Med20 proteins by forming a heterodimer of two-fold symmetry with Med20 and binding the C-terminal alpha-helix region of Med8 across the top of its barrel. This complex creates a multipartite TBP-binding site that can be modulated by transcriptional activators []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 2HZM_F 2HZS_H 3RJ1_E 3C0T_A.
Probab=99.94 E-value=2.4e-26 Score=184.12 Aligned_cols=115 Identities=39% Similarity=0.594 Sum_probs=96.9
Q ss_pred CCCCCCceeeeeeeEee---ccccHHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEEEeeeecCCCCC-----CCCCCcc
Q psy4197 3 VGDKARPTIVRSSIDVA---CSCTVVEFLTEMGCRMDFEYISRGYMFRKGRMKILVSKIFKMSQGKPS-----DSGVEPI 74 (124)
Q Consensus 3 ~gd~~~~~lVRs~vdv~---~S~n~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs~i~k~~~~~~~-----~~~~e~~ 74 (124)
+|+ +|++.+|+++++. +|+|+++||++|||+++|||+.+||+|.+|+|+|++++|+++.+.+.. +......
T Consensus 120 ~~~-~~~v~~r~~~~~~i~~~~~~~~~fl~~lGy~~~~Eyv~~G~~F~~g~i~I~l~ri~~~~~~~~~~~~~~~l~~~d~ 198 (250)
T PF09637_consen 120 AGK-NRPVTVRTIIESTIVGTSGSLLSFLNELGYRFDYEYVVEGYRFFKGDIVIELFRIFKVPPPGQYPPPFDKLKPLDP 198 (250)
T ss_dssp CCS-TTSSEEEEEEEEEEEESSSSHHHHHHHTTEEEEEEEEEEEEEEEECCEEEEEEEEEEEETTCCE---SS-EEECTT
T ss_pred CCC-CCceeEEEEEEEEEecCCCCHHHHHHHcCCceEEEEEEEEEEEEECCEEEEEEEEEecCCCCCCCCCcccCCccCC
Confidence 355 8999999999988 699999999999999999999999999999999999999998876543 2245667
Q ss_pred CCceEEEEEeeCCCCCchH-----HHHHHHHHHhcccceeeecCCcccc
Q psy4197 75 SQSYLVELSILAPGGQDVI-----GEDMKAFAEQLKPLVQLEKIDYKRL 118 (124)
Q Consensus 75 s~s~LVEiSvlap~~~d~~-----a~~ir~FAE~L~Plv~L~K~d~~~l 118 (124)
+++|+||+||.+|.++|.. .+++..|+|+|+|+|+|+++|++.+
T Consensus 199 s~~~lv~a~v~v~~~~d~~~i~~~~~~L~~~~~~Lk~~v~L~~~DR~~~ 247 (250)
T PF09637_consen 199 SGSWLVEASVNVPDGTDPERINKASKELLKFQEQLKGLVDLEKPDRKSM 247 (250)
T ss_dssp TTEEEEEEEEEESTTTSHHHHHHHHHHHHHHHHHHTTTS--B---GGGG
T ss_pred CCCEEEEEEEEccCCCCHHHHHHHHHHHHHHHHHhhccEEEEecccccc
Confidence 9999999999999998754 5667779999999999999999875
No 3
>TIGR00318 cyaB adenylyl cyclase CyaB, putative. The protein CyaB from Aeromonas hydrophila is a second adenylyl cyclase from that species, as demonstrated by complementation in E. coli and by assay of the enzymatic properties of purified recombinant protein. It has no detectable homology to any other protein of known function, and has several unusual properties, including an optimal temperature of 65 degrees and an optimal pH of 9.5. A cluster of uncharaterized archaeal homologs may be orthologous and serve (under certain circumstances) to produce the regulatory metabolite cyclic AMP (cAMP).
Probab=96.10 E-value=0.091 Score=39.93 Aligned_cols=81 Identities=15% Similarity=0.356 Sum_probs=63.6
Q ss_pred eeeeeeeEeecc--ccHHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEEEeeeecCCCCCCCCCCccCCceEEEEEeeCC
Q psy4197 10 TIVRSSIDVACS--CTVVEFLTEMGCRMDFEYISRGYMFRKGRMKILVSKIFKMSQGKPSDSGVEPISQSYLVELSILAP 87 (124)
Q Consensus 10 ~lVRs~vdv~~S--~n~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs~i~k~~~~~~~~~~~e~~s~s~LVEiSvlap 87 (124)
..+|.-+++.+. .++...|..|||+.-.++-..-..|+.|.++|++..+ +.+ + +.|||-+.++
T Consensus 74 ~~~~~E~e~~v~d~~~~~~iL~~LG~~~~~~v~K~R~~~~l~~~~i~lD~v-------------~~l-G-~FvEIE~~~~ 138 (174)
T TIGR00318 74 SKTRKEIEFKIEDIENALQILKKLGFKKVYEVIKKRRIYQTNELNVSIDDV-------------EGL-G-FFLEIEKIIN 138 (174)
T ss_pred ceEEEEEEEEECCHHHHHHHHHHCCCeEEEEEEEEEEEEEECCEEEEEEcc-------------CCC-c-cEEEEEEecC
Confidence 467888887775 6778899999999999999999999999888887533 223 3 5669998886
Q ss_pred CCC--chHHHHHHHHHHhcc
Q psy4197 88 GGQ--DVIGEDMKAFAEQLK 105 (124)
Q Consensus 88 ~~~--d~~a~~ir~FAE~L~ 105 (124)
+.. +.+-+.+..+|+.|-
T Consensus 139 ~~~~~~~~~~~i~~~~~~LG 158 (174)
T TIGR00318 139 NINDKDLALEEIFEIINQLG 158 (174)
T ss_pred CccchHHHHHHHHHHHHHcC
Confidence 543 556788888888874
No 4
>COG1437 CyaB Adenylate cyclase, class 2 (thermophilic) [Nucleotide transport and metabolism]
Probab=94.15 E-value=0.58 Score=37.04 Aligned_cols=80 Identities=16% Similarity=0.300 Sum_probs=65.5
Q ss_pred eeeeeeEeecc--ccHHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEEEeeeecCCCCCCCCCCccCCceEEEEEeeCCC
Q psy4197 11 IVRSSIDVACS--CTVVEFLTEMGCRMDFEYISRGYMFRKGRMKILVSKIFKMSQGKPSDSGVEPISQSYLVELSILAPG 88 (124)
Q Consensus 11 lVRs~vdv~~S--~n~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs~i~k~~~~~~~~~~~e~~s~s~LVEiSvlap~ 88 (124)
=.|.-+++.++ +++.+.|.+|||+.-.+-...=-.|+.|...|++..|..+ | ..|||=+.+++
T Consensus 76 k~r~E~E~~v~D~~~~~~il~~LGF~~~~~VkK~R~iY~~~~~~i~lD~VegL---G------------~F~EIE~~~~d 140 (178)
T COG1437 76 KTREEIEIEVSDVEKALEILKRLGFKEVAVVKKTREIYKVGNVTIELDAVEGL---G------------DFLEIEVMVDD 140 (178)
T ss_pred cceeeEEEEeCCHHHHHHHHHHcCCceeeEEEEEEEEEeeCCEEEEEecccCC---c------------ccEEEEEecCC
Confidence 45778888888 8999999999999999999999999999999988766543 2 36788888888
Q ss_pred CCchH--HHHHHHHHHhcc
Q psy4197 89 GQDVI--GEDMKAFAEQLK 105 (124)
Q Consensus 89 ~~d~~--a~~ir~FAE~L~ 105 (124)
.++-. -+.+..|+.+|-
T Consensus 141 ~~e~~~~~~~~~~i~~~lG 159 (178)
T COG1437 141 ENEIDGAKEEIEEIARQLG 159 (178)
T ss_pred chhhHHHHHHHHHHHHHhC
Confidence 87644 468999998874
No 5
>cd07890 CYTH-like_AC_IV-like Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily. This subgroup contains class IV ACs and similar proteins. AC catalyzes the conversion of ATP to 3',5'-cyclic AMP (cAMP) and PPi. cAMP is a key signaling molecule which conveys a variety of signals in different cell types. In prokaryotes, cAMP is a catabolite derepression signal which triggers the expression of metabolic pathways including the lactose operon. Six non-homologous classes of ACs have been identified (I-VI). Class IV ACs are found in this group. In bacteria, the gene encoding Class IV AC has been designated cyaB and the protein as AC2. AC-IV occurs in addition to AC-I in bacterial pathogens such as Yersinia pestis (plague disease). The role of AC-IV is unknown but it has been speculated that it may be a factor in pathogenesis, perhaps providing cAMP for a secondary internal signaling function, or for secretion and uptake into host cells, where it may disrupt normal cel
Probab=91.83 E-value=2.5 Score=31.42 Aligned_cols=78 Identities=17% Similarity=0.234 Sum_probs=61.0
Q ss_pred eeeeeEeec--cccHHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEEEeeeecCCCCCCCCCCccCCceEEEEEeeCCCC
Q psy4197 12 VRSSIDVAC--SCTVVEFLTEMGCRMDFEYISRGYMFRKGRMKILVSKIFKMSQGKPSDSGVEPISQSYLVELSILAPGG 89 (124)
Q Consensus 12 VRs~vdv~~--S~n~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs~i~k~~~~~~~~~~~e~~s~s~LVEiSvlap~~ 89 (124)
.|..+++.+ -.++...|..|||+.-+.+-..=..|+.+...|++..+.. + -+.+||-+.+++
T Consensus 76 ~~~E~e~~v~~~~~~~~iL~~lg~~~~~~~~K~R~~~~~~~~~v~lD~~~~-------------l--G~f~EiE~~~~~- 139 (169)
T cd07890 76 VREEIETEVADPEAMKEILERLGFGPVGRVKKEREIYLLGQTRVHLDRVEG-------------L--GDFVEIEVVLED- 139 (169)
T ss_pred ceEEEEEecCCHHHHHHHHHHcCCceeEEEEEEEEEEEECCEEEEEEccCC-------------C--CceEEEEEEeCC-
Confidence 577777666 4567778999999999999888888988888888766542 1 238999988877
Q ss_pred CchHHHHHHHHHHhcc
Q psy4197 90 QDVIGEDMKAFAEQLK 105 (124)
Q Consensus 90 ~d~~a~~ir~FAE~L~ 105 (124)
.+...+.+..++++|-
T Consensus 140 ~~~~~~~l~~~~~~lg 155 (169)
T cd07890 140 IEEAEEGLGEAAELLG 155 (169)
T ss_pred cHHHHHHHHHHHHHcC
Confidence 6777888888888764
No 6
>PHA00432 internal virion protein A
Probab=81.62 E-value=1.2 Score=33.94 Aligned_cols=30 Identities=20% Similarity=0.420 Sum_probs=26.4
Q ss_pred cHHHHHHHhCcceeeEEEEeeeeEeeeeeE
Q psy4197 23 TVVEFLTEMGCRMDFEYISRGYMFRKGRMK 52 (124)
Q Consensus 23 n~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ik 52 (124)
...+||+.+||+.+=||-..|+.|+...|+
T Consensus 106 ~hir~Lk~lGf~f~~e~~~~g~~F~~Fti~ 135 (137)
T PHA00432 106 SHIRFLKSIGAVFHNEFTGDGCQFQLFTIT 135 (137)
T ss_pred HHHHHHHHcCeeeecccccCCceeEEEEec
Confidence 357899999999999999999999977663
No 7
>PLN02318 phosphoribulokinase/uridine kinase
Probab=72.98 E-value=22 Score=33.36 Aligned_cols=53 Identities=13% Similarity=0.229 Sum_probs=43.4
Q ss_pred ceeeeeeeEeeccccHHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEEEeeee
Q psy4197 9 PTIVRSSIDVACSCTVVEFLTEMGCRMDFEYISRGYMFRKGRMKILVSKIFKM 61 (124)
Q Consensus 9 ~~lVRs~vdv~~S~n~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs~i~k~ 61 (124)
|-+++.-++--+|-.+..-|..|||+..=.+=+.-..|+.|.++|++..|..+
T Consensus 319 p~ii~pk~~fEv~v~~~~gL~aLGy~~~a~vkk~r~iy~~g~v~i~lD~ve~L 371 (656)
T PLN02318 319 PFIISPRITFEVSVRLLGGLMALGYTIATILKRSSHVFSDDKVCVKIDWLEQL 371 (656)
T ss_pred CeecCcceeEEEeeehHhHHHHcCCceEEEEEEEEEEEecCCEEEEeehhhcc
Confidence 44455555556666777799999999999999999999999999998877655
No 8
>cd07758 ThTPase Thiamine Triphosphatase. ThTPase is a soluble cytosolic enzyme which converts thiamine triphosphate (ThTP) to thiamine diphosphate. This catalytic activity depends on a divalent metal cofactor, for example Mg++. ThTPase regulates the intracellular concentration of ThTP, maintaining it at a low concentration in vivo. ThTP acts as a messenger in cell signaling in response to cellular stress, and in addition, can phosphorylate proteins in certain tissues. There is another class of membrane-associated enzymes in animal tissues which also convert ThTP to thiamine diphosphate, however they do not belong to this subgroup. This subgroup belongs to the CYTH/triphosphate tunnel metalloenzyme (TTM)-like superfamily, whose enzymes have a unique active site located within an eight-stranded beta barrel.
Probab=56.02 E-value=69 Score=24.81 Aligned_cols=69 Identities=9% Similarity=0.084 Sum_probs=50.0
Q ss_pred ccHHHHHHHhCcceeeEEEEeeeeEeee-eeEEEEEEeeeecCCCCCCCCCCccCCceEEEEEeeCCC-----CCchHHH
Q psy4197 22 CTVVEFLTEMGCRMDFEYISRGYMFRKG-RMKILVSKIFKMSQGKPSDSGVEPISQSYLVELSILAPG-----GQDVIGE 95 (124)
Q Consensus 22 ~n~~~Fl~~LGfr~D~Eyl~~G~~f~kg-~ikI~Vs~i~k~~~~~~~~~~~e~~s~s~LVEiSvlap~-----~~d~~a~ 95 (124)
+.+.+.|..+||+.--+|-..=..|+.+ .+.|++-.+. - +...+||=+.+++ ..+.+-+
T Consensus 102 ~~~~~~L~~lgf~~~~~~~k~R~~y~~~~g~~v~LD~~~----~-----------G~~~~EiE~~v~~~~~~~~~~~a~~ 166 (196)
T cd07758 102 GGLGDELANLGLREFASFVTKRESWKLDGAFRVDLDRTD----F-----------GYSVGEVELLVEEEDNEAEVPAALA 166 (196)
T ss_pred hhHHHHHhhCCCeEEEEEEEEEEEEEcCCCcEEEEeccc----C-----------CcceEEEEEEEecccchhhHHHHHH
Confidence 3366899999999999999888888877 6777775543 1 1114566555655 2366688
Q ss_pred HHHHHHHhcc
Q psy4197 96 DMKAFAEQLK 105 (124)
Q Consensus 96 ~ir~FAE~L~ 105 (124)
.|..+|++|.
T Consensus 167 ~i~~~~~~lg 176 (196)
T cd07758 167 KIDELISALM 176 (196)
T ss_pred HHHHHHHHhC
Confidence 9999999885
No 9
>PRK14644 hypothetical protein; Provisional
Probab=54.73 E-value=13 Score=27.77 Aligned_cols=60 Identities=10% Similarity=0.130 Sum_probs=37.2
Q ss_pred HHHHhCcce-eeEEEEeeeeEeeeeeEEEEEEe--------eeecCCCCCCCCCCccCCceEEEEEeeCCCCCchH
Q psy4197 27 FLTEMGCRM-DFEYISRGYMFRKGRMKILVSKI--------FKMSQGKPSDSGVEPISQSYLVELSILAPGGQDVI 93 (124)
Q Consensus 27 Fl~~LGfr~-D~Eyl~~G~~f~kg~ikI~Vs~i--------~k~~~~~~~~~~~e~~s~s~LVEiSvlap~~~d~~ 93 (124)
-+.++||.+ |-||...|-.|. +.|.+.+. .|-...--+ ..++++++|..|+| +|--...+
T Consensus 7 ~~~~~g~el~dve~~~~~~~~~---LrV~Idk~~iddC~~vSr~is~~LD--~~d~i~~~Y~LEVS--SPGldRpL 75 (136)
T PRK14644 7 LLEKFGNKINEIKIVKEDGDLF---LEVILNSRDLKDIEELTKEISDFID--NLSVEFDFDSLDIS--SPGFDMDY 75 (136)
T ss_pred hHHhcCCEEEEEEEEeCCCCEE---EEEEECCCCHHHHHHHHHHHHHHhc--cccCCCCCeEEEEE--CCCCCCCC
Confidence 467899998 999998775442 34555432 111111111 35678999999999 66555545
No 10
>PF01928 CYTH: CYTH domain; InterPro: IPR008172 The CYTH domain is an ancient enzymatic domain that was present in the Last Universal Common Ancestor and was involved in nucleotide or organic phosphate metabolism []. It is found in a variety of enzymes, including thiamine-triphosphatase and the CyaB-like adenlyl cyclases []. Structurally, this domain consists mainly of antiparallel beta sheets that form a wide barrel with a channel running through it.; GO: 0006796 phosphate-containing compound metabolic process; PDB: 2DC4_B 3SY3_A 3TJ7_D 3N10_A 3N0Z_A 3N0Y_A 2FJT_A 2GFG_A 2EEN_A 2ACA_B ....
Probab=53.99 E-value=84 Score=22.92 Aligned_cols=71 Identities=15% Similarity=0.231 Sum_probs=51.2
Q ss_pred cccHHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEEEeeeecCCCCCCCCCCccCCceEEEEEeeCCCCCc--hHHHHHH
Q psy4197 21 SCTVVEFLTEMGCRMDFEYISRGYMFRKGRMKILVSKIFKMSQGKPSDSGVEPISQSYLVELSILAPGGQD--VIGEDMK 98 (124)
Q Consensus 21 S~n~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs~i~k~~~~~~~~~~~e~~s~s~LVEiSvlap~~~d--~~a~~ir 98 (124)
.+++.++|..+||+.-+++-..-..|+-+.+.|.+-.+.-. .-+-+||-+.+.+..+ .+++++.
T Consensus 96 ~~~~~~~l~~l~l~~~~~~~k~R~~~~~~~~~v~lD~~~~~--------------~~~~~EiE~~~~~~~~~~~~~~~i~ 161 (185)
T PF01928_consen 96 AEEMREILEALGLRPVARIEKKRRSYRLEGVEVELDEVDGL--------------PGTFLEIEIESEDEEDLKEAAEEIL 161 (185)
T ss_dssp HHHHHHHHHHTTCEEEEEEEEEEEEEEETTEEEEEEEETTT--------------TEEEEEEEEEESSHHHHHHHHHHHH
T ss_pred hHHHHHHHHHhcCceeEEEEEEEEEEEECCEEEEEEEEecc--------------eEEEEEEEEcCCCHhHHHHHHHHHH
Confidence 46789999999999999999999999988877777655322 4567888876644332 3355555
Q ss_pred HHHHhcc
Q psy4197 99 AFAEQLK 105 (124)
Q Consensus 99 ~FAE~L~ 105 (124)
..+..|.
T Consensus 162 ~~~~~l~ 168 (185)
T PF01928_consen 162 ALLNELG 168 (185)
T ss_dssp HHHHHTT
T ss_pred HHhhhcC
Confidence 5665554
No 11
>PF10120 Aldolase_2: Putative aldolase; InterPro: IPR019293 This family of proteins have no known function. In many cases they represent a domain C-terminal to a phosphomethylpyrimidine kinase domain or a HTH DNA-binding domain.; PDB: 2PHP_A 2PB9_A.
Probab=48.85 E-value=13 Score=28.76 Aligned_cols=25 Identities=28% Similarity=0.550 Sum_probs=19.7
Q ss_pred eeeeeeEeeccccHHHHHHHhCcce
Q psy4197 11 IVRSSIDVACSCTVVEFLTEMGCRM 35 (124)
Q Consensus 11 lVRs~vdv~~S~n~~~Fl~~LGfr~ 35 (124)
-+|+++.++++..+++-|.++||+.
T Consensus 81 ~iRsaiNiry~~~i~~~l~~~g~~v 105 (170)
T PF10120_consen 81 EIRSAINIRYDEEIIEALEELGLKV 105 (170)
T ss_dssp T--EEEEEE--HHHHHHHHCTTSEE
T ss_pred CceEEEEEecCHHHHHHHHHCCCeE
Confidence 3699999999999999999999986
No 12
>PF14814 UB2H: Bifunctional transglycosylase second domain; PDB: 3FWL_A 3VMA_A.
Probab=46.31 E-value=45 Score=22.56 Aligned_cols=25 Identities=16% Similarity=0.040 Sum_probs=14.6
Q ss_pred cccHHHHHHHhCcceeeEEEEeeee
Q psy4197 21 SCTVVEFLTEMGCRMDFEYISRGYM 45 (124)
Q Consensus 21 S~n~~~Fl~~LGfr~D~Eyl~~G~~ 45 (124)
.+.+..-|+.||||..-..-.-|.-
T Consensus 9 ~~~l~~eL~~LgYR~v~~~~~pG~y 33 (85)
T PF14814_consen 9 PAQLEQELELLGYRKVSNPDRPGEY 33 (85)
T ss_dssp HHHHHHHHHHTT-EE-SS--STTEE
T ss_pred HHHHHHHHHHcCCCcCCCCCCCeEE
Confidence 3568889999999998433333333
No 13
>PF09010 AsiA: Anti-Sigma Factor A; InterPro: IPR015100 Anti-sigma factor A is a transcriptional inhibitor that inhibits sigma 70-directed transcription by weakening its interaction with the core of the host's RNA polymerase. It is an all-helical protein, composed of six helical segments and intervening loops and turns, as well as a helix-turn-helix DNA binding motif, although neither free anti-sigma factor nor anti-sigma factor bound to sigma-70 has been shown to interact directly with DNA. In solution, the protein forms a symmetric dimer of small (10.59 kDa) protomers, which are composed of helix and coil regions and are devoid of beta-strand/sheet secondary structural elements []. ; PDB: 1TKV_A 1JR5_B 1TLH_A 1TL6_A.
Probab=44.10 E-value=12 Score=26.88 Aligned_cols=14 Identities=36% Similarity=0.636 Sum_probs=11.6
Q ss_pred ccHHHHHHHhCcce
Q psy4197 22 CTVVEFLTEMGCRM 35 (124)
Q Consensus 22 ~n~~~Fl~~LGfr~ 35 (124)
.+++.||.|+|||-
T Consensus 31 ~~FIaFLNElG~r~ 44 (91)
T PF09010_consen 31 ELFIAFLNELGFRT 44 (91)
T ss_dssp HHHHHHHHHHT-ES
T ss_pred HHHHHHHHHhcccc
Confidence 57899999999986
No 14
>COG0096 RpsH Ribosomal protein S8 [Translation, ribosomal structure and biogenesis]
Probab=40.35 E-value=43 Score=25.36 Aligned_cols=54 Identities=26% Similarity=0.348 Sum_probs=36.1
Q ss_pred eeeeeEeecccc---HHHHHHHhCcceeeEEEEeeee--Ee---eeee--EEEEEEeeeecCCC
Q psy4197 12 VRSSIDVACSCT---VVEFLTEMGCRMDFEYISRGYM--FR---KGRM--KILVSKIFKMSQGK 65 (124)
Q Consensus 12 VRs~vdv~~S~n---~~~Fl~~LGfr~D~Eyl~~G~~--f~---kg~i--kI~Vs~i~k~~~~~ 65 (124)
-+.++++..|+- +++-|++-||=-||||+-+|-. ++ ++++ +=.++.+.++.+|+
T Consensus 21 ~~~~v~~P~SKl~~~il~vLk~eGYI~~f~~~~~~~~~~~~v~Lky~~n~~~vI~~~~rVSkpg 84 (132)
T COG0096 21 KKEVVSMPASKLKGAILKVLKKEGYIKDFEVIDDGRKGKLRVQLKYRINGCGVISPIKRVSKPG 84 (132)
T ss_pred ccceeecchHHHHHHHHHHHHHcCCcceEEEEeCCcceEEEEEEEeccCCCcccccceecCCCC
Confidence 345677888875 4555778899999999985543 22 4432 44556667777774
No 15
>TIGR03515 GldC gliding motility-associated protein GldC. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldC is a protein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldC do not abolish the gliding phenotype but do impair it. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.
Probab=39.62 E-value=19 Score=26.65 Aligned_cols=19 Identities=26% Similarity=0.601 Sum_probs=14.7
Q ss_pred CCCchHHHHHHHHHHhccc
Q psy4197 88 GGQDVIGEDMKAFAEQLKP 106 (124)
Q Consensus 88 ~~~d~~a~~ir~FAE~L~P 106 (124)
.+.+.+++.||.||++++-
T Consensus 84 T~d~kma~~m~dfcd~fae 102 (108)
T TIGR03515 84 TGDEKMAEDIKDLCDRLAQ 102 (108)
T ss_pred cCcHHHHHHHHHHHHHHHH
Confidence 3456679999999998864
No 16
>COG1992 Uncharacterized conserved protein [Function unknown]
Probab=36.81 E-value=31 Score=27.51 Aligned_cols=24 Identities=33% Similarity=0.571 Sum_probs=22.9
Q ss_pred eeeeeEeeccccHHHHHHHhCcce
Q psy4197 12 VRSSIDVACSCTVVEFLTEMGCRM 35 (124)
Q Consensus 12 VRs~vdv~~S~n~~~Fl~~LGfr~ 35 (124)
+|+++.++.|..+.+-+.++||+.
T Consensus 89 iraa~NIrY~~~~v~~~~~~G~~v 112 (181)
T COG1992 89 IRAAINIRYSEEVVEALKDLGLAV 112 (181)
T ss_pred ceEEeeecccHHHHHHHHhcCceE
Confidence 799999999999999999999985
No 17
>TIGR02914 EpsI_fam EpsI family protein. In Methylobacillus sp strain 12S, EpsI is encoded immediately downstream of the multiple-membrane-spanning putative transporter EpsH, and is predicted to be a periplasmic protein involved in, but not required for, expression of the exopolysaccharide methanolan. In a number of other species, protein homologous to EpsI is encoded either next to EpsH or, more often, combined in a fused gene. We have proposed renaming EpsH, or the EpsHI fusion protein, to exosortase, based on its phylogenetic association with the PEP-CTERM proposed protein targeting signal.
Probab=35.77 E-value=49 Score=24.73 Aligned_cols=35 Identities=14% Similarity=0.284 Sum_probs=27.1
Q ss_pred cCCceEEEEEeeCCC-CCchHHHHHHHHHHhcccce
Q psy4197 74 ISQSYLVELSILAPG-GQDVIGEDMKAFAEQLKPLV 108 (124)
Q Consensus 74 ~s~s~LVEiSvlap~-~~d~~a~~ir~FAE~L~Plv 108 (124)
-++..||=||+...+ +.+...+.++.|...+.|.+
T Consensus 135 ~~dgalvrvst~~~~~~~~~a~~~l~~f~~~~~p~~ 170 (174)
T TIGR02914 135 RPDGALVRVSTPVADSSPEAARAVLRDFLRAMAPVL 170 (174)
T ss_pred CCCceEEEEEEecCCCCHHHHHHHHHHHHHHhhhhh
Confidence 467899999965544 44566778999999999975
No 18
>PF02021 UPF0102: Uncharacterised protein family UPF0102; InterPro: IPR003509 The proteins in this entry are functionally uncharacterised.; PDB: 3FOV_A.
Probab=33.79 E-value=92 Score=21.47 Aligned_cols=30 Identities=23% Similarity=0.625 Sum_probs=24.8
Q ss_pred HHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEEE
Q psy4197 24 VVEFLTEMGCRMDFEYISRGYMFRKGRMKILVSK 57 (124)
Q Consensus 24 ~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs~ 57 (124)
+..||...||+. +...|..+.|.|.|...+
T Consensus 6 A~~~L~~~G~~I----L~rN~r~~~GEIDiIa~~ 35 (93)
T PF02021_consen 6 AARYLERKGYRI----LERNWRCRRGEIDIIARD 35 (93)
T ss_dssp HHHHHHHTT-EE----EEEEEEETTEEEEEEEEE
T ss_pred HHHHHHHCCCEE----eeeeecCCCCcEeEEEEE
Confidence 578999988765 888999999999998876
No 19
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=33.38 E-value=41 Score=21.22 Aligned_cols=22 Identities=18% Similarity=0.197 Sum_probs=17.2
Q ss_pred eeccccHHHHHHHhCcceeeEE
Q psy4197 18 VACSCTVVEFLTEMGCRMDFEY 39 (124)
Q Consensus 18 v~~S~n~~~Fl~~LGfr~D~Ey 39 (124)
-....|+..|+++.||+.+.+-
T Consensus 35 ~~s~~~i~~~~~~~G~~~~~~~ 56 (67)
T cd03421 35 EVAKENVSRFAESRGYEVSVEE 56 (67)
T ss_pred hhHHHHHHHHHHHcCCEEEEEe
Confidence 3444799999999999996543
No 20
>PF02737 3HCDH_N: 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; InterPro: IPR006176 3-hydroxyacyl-CoA dehydrogenase (1.1.1.35 from EC) (HCDH) [] is an enzyme involved in fatty acid metabolism, it catalyzes the reduction of 3-hydroxyacyl-CoA to 3-oxoacyl-CoA. Most eukaryotic cells have 2 fatty-acid beta-oxidation systems, one located in mitochondria and the other in peroxisomes. In peroxisomes 3-hydroxyacyl-CoA dehydrogenase forms, with enoyl-CoA hydratase (ECH) and 3,2-trans-enoyl-CoA isomerase (ECI) a multifunctional enzyme where the N-terminal domain bears the hydratase/isomerase activities and the C-terminal domain the dehydrogenase activity. There are two mitochondrial enzymes: one which is monofunctional and the other which is, like its peroxisomal counterpart, multifunctional. In Escherichia coli (gene fadB) and Pseudomonas fragi (gene faoA) HCDH is part of a multifunctional enzyme which also contains an ECH/ECI domain as well as a 3-hydroxybutyryl-CoA epimerase domain []. There are two major regions of similarity in the sequences of proteins of the HCDH family, the first one located in the N-terminal, corresponds to the NAD-binding site, the second one is located in the centre of the sequence. This represents the C-terminal domain which is also found in lambda crystallin. Some proteins include two copies of this domain.; GO: 0003857 3-hydroxyacyl-CoA dehydrogenase activity, 0016491 oxidoreductase activity, 0006631 fatty acid metabolic process, 0055114 oxidation-reduction process; PDB: 3K6J_A 1ZCJ_A 2X58_A 1ZEJ_A 3HDH_B 2WTB_A 1WDL_B 2D3T_B 1WDK_A 1WDM_B ....
Probab=33.08 E-value=64 Score=24.41 Aligned_cols=32 Identities=22% Similarity=0.265 Sum_probs=23.7
Q ss_pred ccCCceEEEEEeeCCCCCchHHHHHHHHHHhcc
Q psy4197 73 PISQSYLVELSILAPGGQDVIGEDMKAFAEQLK 105 (124)
Q Consensus 73 ~~s~s~LVEiSvlap~~~d~~a~~ir~FAE~L~ 105 (124)
|-...-|||| +..+.+.+...+.+..|++++.
T Consensus 140 P~~~~~lVEv-v~~~~T~~~~~~~~~~~~~~~g 171 (180)
T PF02737_consen 140 PPHLMPLVEV-VPGPKTSPETVDRVRALLRSLG 171 (180)
T ss_dssp STTT--EEEE-EE-TTS-HHHHHHHHHHHHHTT
T ss_pred ccccCceEEE-eCCCCCCHHHHHHHHHHHHHCC
Confidence 4457789999 5678889999999999999874
No 21
>cd06587 Glo_EDI_BRP_like This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins. This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). Type I extradiol dioxygenases catalyze the incorporation of both atoms of molecular oxygen into aromatic substrates, which results in the cleavage of aromatic rings. They are key enzymes in the degradation of aromatic compounds. Type I extradiol dioxygenases include class I and class II enzymes. Class I and II enzymes show sequence similarity; the two-domain clas
Probab=32.01 E-value=1.2e+02 Score=18.38 Aligned_cols=38 Identities=16% Similarity=0.139 Sum_probs=24.7
Q ss_pred cccHHHHHHH-hCcceeeEEE---EeeeeEeeeeeEEEEEEe
Q psy4197 21 SCTVVEFLTE-MGCRMDFEYI---SRGYMFRKGRMKILVSKI 58 (124)
Q Consensus 21 S~n~~~Fl~~-LGfr~D~Eyl---~~G~~f~kg~ikI~Vs~i 58 (124)
.+...+|+.+ |||+...+.- ..-..|+.+...|.+...
T Consensus 9 ~~~~~~fy~~~lg~~~~~~~~~~~~~~~~~~~~~~~i~l~~~ 50 (112)
T cd06587 9 LEAAVAFYEEVLGFEVLFRNGNGGAEFAVLGLGGTRLELFEG 50 (112)
T ss_pred HHHHHHHHHhccCCEEEEeeccCCEEEEEEecCCceEEEecC
Confidence 5667889998 9999988875 222334445455555443
No 22
>PF08872 KGK: KGK domain; InterPro: IPR014971 This protein is found in one or two copies in cyanobacterial proteins. It is named after a short sequence motif.
Probab=31.16 E-value=47 Score=24.34 Aligned_cols=25 Identities=28% Similarity=0.450 Sum_probs=21.1
Q ss_pred CcceeeEEEEeee-eEeeeeeEEEEE
Q psy4197 32 GCRMDFEYISRGY-MFRKGRMKILVS 56 (124)
Q Consensus 32 Gfr~D~Eyl~~G~-~f~kg~ikI~Vs 56 (124)
+..++-|.++-|+ -|+||+++|.++
T Consensus 64 ~~Gi~CeiL~~g~~~W~kGK~ri~~~ 89 (114)
T PF08872_consen 64 SEGIECEILRFGSKGWQKGKVRIKVS 89 (114)
T ss_pred cCCeeEEEeccCCCCCccceEEEEEE
Confidence 5678899999996 999999999554
No 23
>PTZ00167 RNA polymerase subunit 8c; Provisional
Probab=30.24 E-value=47 Score=25.54 Aligned_cols=22 Identities=27% Similarity=0.532 Sum_probs=17.6
Q ss_pred eeeEEEEeeeeEee-----eeeEEEEE
Q psy4197 35 MDFEYISRGYMFRK-----GRMKILVS 56 (124)
Q Consensus 35 ~D~Eyl~~G~~f~k-----g~ikI~Vs 56 (124)
=||||+--|..|+. ++++|.+|
T Consensus 83 d~ydYVM~GkvYk~ee~~s~~~~vy~S 109 (144)
T PTZ00167 83 DQYEYVMYGKIFKFEEKSSERRTLYAS 109 (144)
T ss_pred ccCCEEcceEEEEeeecCCCcEEEEEE
Confidence 58999999999983 46666666
No 24
>PF08530 PepX_C: X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; InterPro: IPR013736 This domain is found at the C terminus of cocaine esterase CocE, several glutaryl-7-ACA acylases, and the putative diester hydrolase NonD of Streptomyces griseus (all hydrolases). The domain, which is a beta sandwich, is also found in serine peptidases belonging to MEROPS peptidase family S15: Xaa-Pro dipeptidyl-peptidases. Members of this entry, that are not characterised as peptidases, show extensive low-level similarity to the Xaa-Pro dipeptidyl-peptidases. ; GO: 0008239 dipeptidyl-peptidase activity; PDB: 2B4K_D 1RYY_F 2B9V_O 1NX9_B 3PUH_B 3I2I_A 3I2G_A 1JU4_A 3I2K_A 1L7R_A ....
Probab=28.80 E-value=67 Score=24.43 Aligned_cols=28 Identities=21% Similarity=0.389 Sum_probs=23.4
Q ss_pred cceeeEEEEeeeeEeee-eeEEEEEEeee
Q psy4197 33 CRMDFEYISRGYMFRKG-RMKILVSKIFK 60 (124)
Q Consensus 33 fr~D~Eyl~~G~~f~kg-~ikI~Vs~i~k 60 (124)
++++.|+...+|.|.+| |+.|.|+.-..
T Consensus 154 ~~~~i~L~p~~~~~~~GhrLrl~I~~~d~ 182 (218)
T PF08530_consen 154 YDVTIELQPTAYVFPAGHRLRLSISSSDF 182 (218)
T ss_dssp EEEEEEEEEEEEEE-TT-EEEEEEESSBB
T ss_pred EEEEEEEchhccEECCCCEEEEEEEecCC
Confidence 68999999999999987 88999998743
No 25
>PRK14686 hypothetical protein; Provisional
Probab=28.73 E-value=66 Score=23.32 Aligned_cols=28 Identities=36% Similarity=0.743 Sum_probs=24.3
Q ss_pred HHHHHHHhCcceeeEEEEeeeeEeeeeeEEEE
Q psy4197 24 VVEFLTEMGCRMDFEYISRGYMFRKGRMKILV 55 (124)
Q Consensus 24 ~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~V 55 (124)
+..||...||+. +.+.|.++.|-|.|..
T Consensus 15 A~~~L~~~Gy~i----l~rN~r~~~GEIDlIa 42 (119)
T PRK14686 15 AVEFLIKKGYTI----LERNYRFQKAEIDIIA 42 (119)
T ss_pred HHHHHHHCCCEE----EEEEecCCCCcEEEEE
Confidence 578999999865 8999999999999986
No 26
>smart00658 RPOL8c RNA polymerase subunit 8. subunit of RNA polymerase I, II and III
Probab=27.93 E-value=62 Score=24.77 Aligned_cols=21 Identities=29% Similarity=0.702 Sum_probs=16.5
Q ss_pred eeEEEEeeeeEee-----e--eeEEEEE
Q psy4197 36 DFEYISRGYMFRK-----G--RMKILVS 56 (124)
Q Consensus 36 D~Eyl~~G~~f~k-----g--~ikI~Vs 56 (124)
+|||+--|..|+. + +++|.+|
T Consensus 86 ~ydYVM~GkvYk~e~~~~~~~~~~vy~S 113 (143)
T smart00658 86 KYEYVMYGKVYRIEEDKTETEKLSVYVS 113 (143)
T ss_pred cCCEEeeeEEEEEEecCCCceEEEEEEE
Confidence 9999999999982 3 5566655
No 27
>PF11984 DUF3485: Protein of unknown function (DUF3485); InterPro: IPR014263 This entry contains EpsI from Methylobacillus sp. 12S. EpsI is encoded immediately downstream of the multiple-membrane-spanning putative transporter EpsH, and is predicted to be a periplasmic protein involved in, but not required for, expression of the exopolysaccharide methanolan. In a number of other species, protein homologues to EpsI are encoded either next to epsH or, more often, combined in a fused gene.
Probab=27.84 E-value=79 Score=23.69 Aligned_cols=35 Identities=20% Similarity=0.366 Sum_probs=27.0
Q ss_pred CCceEEEEEeeCCCCCchHHHHHHHHHHhccccee
Q psy4197 75 SQSYLVELSILAPGGQDVIGEDMKAFAEQLKPLVQ 109 (124)
Q Consensus 75 s~s~LVEiSvlap~~~d~~a~~ir~FAE~L~Plv~ 109 (124)
+++.||=||+....+.+...+.+++|+.++.|.+.
T Consensus 168 ~d~alvrvst~~~~~~~~a~~~l~~f~~~~~~~l~ 202 (206)
T PF11984_consen 168 DDGALVRVSTPVDGDEEQARARLQDFLRDLLPALE 202 (206)
T ss_pred CCcEEEEEEEeCCCChHHHHHHHHHHHHHHHHhhh
Confidence 48889999944434457779999999999998764
No 28
>PRK08573 phosphomethylpyrimidine kinase; Provisional
Probab=26.98 E-value=56 Score=28.30 Aligned_cols=25 Identities=24% Similarity=0.392 Sum_probs=23.4
Q ss_pred eeeeeeEeeccccHHHHHHHhCcce
Q psy4197 11 IVRSSIDVACSCTVVEFLTEMGCRM 35 (124)
Q Consensus 11 lVRs~vdv~~S~n~~~Fl~~LGfr~ 35 (124)
=+|+++.++.+.++.+-|+++||+.
T Consensus 355 ~~r~~~ni~y~~~~~~~~~~~~~~~ 379 (448)
T PRK08573 355 EIRSAMNIKYSEELVEKAKSLGYTV 379 (448)
T ss_pred CceEEEEecCCHHHHHHHHHcCCeE
Confidence 4799999999999999999999886
No 29
>PF13114 RecO_N_2: RecO N terminal
Probab=26.64 E-value=39 Score=23.12 Aligned_cols=15 Identities=33% Similarity=0.775 Sum_probs=12.9
Q ss_pred HHhCcceeeEEEEee
Q psy4197 29 TEMGCRMDFEYISRG 43 (124)
Q Consensus 29 ~~LGfr~D~Eyl~~G 43 (124)
-.+||+.|||+-..+
T Consensus 40 i~lG~kiDfe~e~~~ 54 (71)
T PF13114_consen 40 IQLGYKIDFELEQNG 54 (71)
T ss_pred eeccceEEEEEecCc
Confidence 368999999998877
No 30
>PRK14677 hypothetical protein; Provisional
Probab=25.96 E-value=1.1e+02 Score=21.98 Aligned_cols=30 Identities=23% Similarity=0.582 Sum_probs=24.9
Q ss_pred HHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEEE
Q psy4197 24 VVEFLTEMGCRMDFEYISRGYMFRKGRMKILVSK 57 (124)
Q Consensus 24 ~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs~ 57 (124)
+..||...||+. +.+.|.++.|-|.|...+
T Consensus 10 A~~~L~~~Gy~I----l~rN~r~~~GEIDlIa~~ 39 (107)
T PRK14677 10 ACKFLKKKGYKI----LERNYRTKYGEIDIVARD 39 (107)
T ss_pred HHHHHHHCCCEE----EEEEecCCCceeeEEEEE
Confidence 578999988765 888999999999998753
No 31
>PRK07066 3-hydroxybutyryl-CoA dehydrogenase; Validated
Probab=25.45 E-value=92 Score=26.22 Aligned_cols=36 Identities=19% Similarity=0.141 Sum_probs=28.2
Q ss_pred ccCCceEEEEEeeCCCCCchHHHHHHHHHHhcc--ccee
Q psy4197 73 PISQSYLVELSILAPGGQDVIGEDMKAFAEQLK--PLVQ 109 (124)
Q Consensus 73 ~~s~s~LVEiSvlap~~~d~~a~~ir~FAE~L~--Plv~ 109 (124)
|-...-|||| |-++.+.+...+.++.|++.|- |++.
T Consensus 145 P~~~~pLVEV-v~g~~T~~e~~~~~~~f~~~lGk~pV~v 182 (321)
T PRK07066 145 PVYLLPLVEV-LGGERTAPEAVDAAMGIYRALGMRPLHV 182 (321)
T ss_pred ccccCceEEE-eCCCCCCHHHHHHHHHHHHHcCCEeEec
Confidence 3345569998 4668888999999999999987 7654
No 32
>smart00733 Mterf Mitochondrial termination factor repeats. Human mitochondrial termination factor is a DNA-binding protein that acts as a transcription termination factor. Six repeats occur in human mTERF, that also are present in numerous plant proteins.
Probab=25.26 E-value=47 Score=16.63 Aligned_cols=12 Identities=50% Similarity=0.791 Sum_probs=9.6
Q ss_pred cHHHHHHHhCcc
Q psy4197 23 TVVEFLTEMGCR 34 (124)
Q Consensus 23 n~~~Fl~~LGfr 34 (124)
..++||.++|+.
T Consensus 20 ~~~~~l~~~g~~ 31 (31)
T smart00733 20 PKVEFLKELGFS 31 (31)
T ss_pred HHHHHHHHcCCC
Confidence 478899999974
No 33
>PRK14684 hypothetical protein; Provisional
Probab=24.97 E-value=1.1e+02 Score=22.34 Aligned_cols=29 Identities=17% Similarity=0.655 Sum_probs=24.7
Q ss_pred HHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEE
Q psy4197 24 VVEFLTEMGCRMDFEYISRGYMFRKGRMKILVS 56 (124)
Q Consensus 24 ~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs 56 (124)
+..||...||+. +.+.|.++.|-|.|...
T Consensus 16 A~~~L~~~Gy~I----l~rN~r~~~GEIDiIa~ 44 (120)
T PRK14684 16 ACRYLQKQGLSF----ITKNFRYKQGEIDLIMS 44 (120)
T ss_pred HHHHHHHCCCEE----EEEEecCCCCeEEEEEE
Confidence 578999999765 89999999999999874
No 34
>PRK14676 hypothetical protein; Provisional
Probab=24.38 E-value=1e+02 Score=22.35 Aligned_cols=29 Identities=14% Similarity=0.275 Sum_probs=24.6
Q ss_pred HHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEE
Q psy4197 24 VVEFLTEMGCRMDFEYISRGYMFRKGRMKILVS 56 (124)
Q Consensus 24 ~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs 56 (124)
+.+||...||+. +...|.++.|-|.|...
T Consensus 17 A~~~L~~~Gy~I----l~rN~r~~~GEIDiIa~ 45 (117)
T PRK14676 17 VARIYDRSGRPV----AARRWRGVSGEIDLIAR 45 (117)
T ss_pred HHHHHHHCCCEE----eeeecCCCCCeEEEEEe
Confidence 578999999765 88999999999999864
No 35
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=23.95 E-value=1e+02 Score=19.31 Aligned_cols=17 Identities=18% Similarity=0.173 Sum_probs=14.1
Q ss_pred eeccccHHHHHHHhCcc
Q psy4197 18 VACSCTVVEFLTEMGCR 34 (124)
Q Consensus 18 v~~S~n~~~Fl~~LGfr 34 (124)
-.+..|+..|+.++||+
T Consensus 37 ~~~~~di~~~~~~~g~~ 53 (70)
T PF01206_consen 37 PAAVEDIPRWCEENGYE 53 (70)
T ss_dssp TTHHHHHHHHHHHHTEE
T ss_pred ccHHHHHHHHHHHCCCE
Confidence 34458899999999997
No 36
>TIGR00252 conserved hypothetical protein TIGR00252. the scores for Mycobacterium tuberculosis and Treponema pallidum are low considering the alignment
Probab=23.91 E-value=1.1e+02 Score=22.20 Aligned_cols=29 Identities=14% Similarity=0.368 Sum_probs=24.6
Q ss_pred HHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEE
Q psy4197 24 VVEFLTEMGCRMDFEYISRGYMFRKGRMKILVS 56 (124)
Q Consensus 24 ~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs 56 (124)
+..||...||+. +.+.|.++.|-|.|...
T Consensus 16 A~~~L~~~Gy~I----l~rN~r~~~GEIDiIa~ 44 (119)
T TIGR00252 16 ARAWLEQKGLKF----IAANWNSPWGEIDLIMH 44 (119)
T ss_pred HHHHHHHCCCEE----eEEEecCCCCcEEEEEe
Confidence 578999988764 99999999999999864
No 37
>TIGR00133 gatB glutamyl-tRNA(Gln) and/or aspartyl-tRNA(Asn) amidotransferase, B subunit. The heterotrimer GatABC is responsible for transferring the NH2 group that converts Glu to Gln, or Asp to Asn after the Glu or Asp has been ligated to the tRNA for Gln or Asn, respectively. In Lactobacillus, GatABC is responsible only for tRNA(Gln). In the Archaea, GatABC is responsible only for tRNA(Asn), while GatDE is responsible for tRNA(Gln). In lineages that include Thermus, Chlamydia, or Acidithiobacillus, the GatABC complex catalyzes both.
Probab=23.89 E-value=2.8e+02 Score=24.97 Aligned_cols=32 Identities=22% Similarity=0.429 Sum_probs=20.0
Q ss_pred CCceEEEEEeeCCCCCchHHHHHHHHHHhccccee
Q psy4197 75 SQSYLVELSILAPGGQDVIGEDMKAFAEQLKPLVQ 109 (124)
Q Consensus 75 s~s~LVEiSvlap~~~d~~a~~ir~FAE~L~Plv~ 109 (124)
.+.-|+|| |+.|+- .-+++.+.|++.|+=++.
T Consensus 149 aGvPLiEI-VTePd~--~s~eeA~~~~~~L~~ilr 180 (478)
T TIGR00133 149 SGAPLIEI-VTKPDI--NSPKEARAFLKKLRQILR 180 (478)
T ss_pred CCCceEEE-ecCCCC--CCHHHHHHHHHHHHHHHH
Confidence 45669998 455532 226677777777765543
No 38
>COG1780 NrdI Protein involved in ribonucleotide reduction [Nucleotide transport and metabolism]
Probab=23.82 E-value=69 Score=24.68 Aligned_cols=32 Identities=19% Similarity=0.308 Sum_probs=25.6
Q ss_pred eeccccHHHHHHHhC--------------cceeeEEEEeeeeEeee
Q psy4197 18 VACSCTVVEFLTEMG--------------CRMDFEYISRGYMFRKG 49 (124)
Q Consensus 18 v~~S~n~~~Fl~~LG--------------fr~D~Eyl~~G~~f~kg 49 (124)
++.|+|..+|.+.|| +.+|.+|+.-=+.|-.|
T Consensus 8 ~S~SgNt~RFv~kL~~~~~~I~~~~~~~~~~v~epyvlitpTyg~G 53 (141)
T COG1780 8 SSLSGNTHRFVEKLGLPAVRIPLNREEDPIEVDEPYVLITPTYGGG 53 (141)
T ss_pred EecCccHHHHHHHhCCCceecccccccCCccCCCCeEEEeccccCC
Confidence 788999999999999 45667777766666666
No 39
>PHA02881 hypothetical protein; Provisional
Probab=22.77 E-value=12 Score=28.84 Aligned_cols=34 Identities=26% Similarity=0.368 Sum_probs=25.8
Q ss_pred cccHHHHHHHhCcceeeEEEEeeeeEeee-eeEEE
Q psy4197 21 SCTVVEFLTEMGCRMDFEYISRGYMFRKG-RMKIL 54 (124)
Q Consensus 21 S~n~~~Fl~~LGfr~D~Eyl~~G~~f~kg-~ikI~ 54 (124)
-+|-...+-|.|||=|-.-+.||++|.+- ++.|.
T Consensus 70 ~~~q~kl~lefgyrddk~~ikkg~~~i~~l~ld~~ 104 (161)
T PHA02881 70 KENQFKLCLEFGYRDDKDCIKKGHMFIGFLNLDII 104 (161)
T ss_pred ecceeeeeeeeccccchhHHhcCcEEEEEEeeeeE
Confidence 34555667789999999999999999854 44443
No 40
>PRK14674 hypothetical protein; Provisional
Probab=22.39 E-value=1.3e+02 Score=22.48 Aligned_cols=30 Identities=23% Similarity=0.526 Sum_probs=25.3
Q ss_pred cHHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEE
Q psy4197 23 TVVEFLTEMGCRMDFEYISRGYMFRKGRMKILVS 56 (124)
Q Consensus 23 n~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs 56 (124)
-+..||...||+. +.+.|.++.|-|.|...
T Consensus 14 ~A~~~L~~~Gy~I----l~rN~r~~~GEIDiIa~ 43 (133)
T PRK14674 14 TALKLLKEQNYEW----VASNYHSRRGEVDLIVK 43 (133)
T ss_pred HHHHHHHHCCCEE----eEEeeecCCCCEeEEEE
Confidence 3578999999865 89999999999999864
No 41
>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine
Probab=22.14 E-value=1.4e+02 Score=21.11 Aligned_cols=29 Identities=28% Similarity=0.281 Sum_probs=24.3
Q ss_pred ceEEEEEeeCCCCCchHHHHHHHHHHhcc
Q psy4197 77 SYLVELSILAPGGQDVIGEDMKAFAEQLK 105 (124)
Q Consensus 77 s~LVEiSvlap~~~d~~a~~ir~FAE~L~ 105 (124)
...+|.|+..|.+.+++.+-+...+.+++
T Consensus 141 ~~~~e~Sa~~~~~~~~i~~~f~~l~~~~~ 169 (170)
T cd04115 141 MPLFETSAKDPSENDHVEAIFMTLAHKLK 169 (170)
T ss_pred CcEEEEeccCCcCCCCHHHHHHHHHHHhh
Confidence 55899998889889999888888887765
No 42
>PTZ00480 serine/threonine-protein phosphatase; Provisional
Probab=22.04 E-value=1.4e+02 Score=25.41 Aligned_cols=38 Identities=18% Similarity=0.246 Sum_probs=28.0
Q ss_pred cccHHHHHHHhCcce---eeEEEEeeeeEeeeeeEEEEEEe
Q psy4197 21 SCTVVEFLTEMGCRM---DFEYISRGYMFRKGRMKILVSKI 58 (124)
Q Consensus 21 S~n~~~Fl~~LGfr~---D~Eyl~~G~~f~kg~ikI~Vs~i 58 (124)
...+.+||++.|+++ -||++.+||.|..+.-=|||-+-
T Consensus 231 ~~~~~~Fl~~n~l~~IiR~Hq~v~~G~~~~~~~~~iTvFSa 271 (320)
T PTZ00480 231 QEIVQVFLKKHELDLICRAHQVVEDGYEFFSKRQLVTLFSA 271 (320)
T ss_pred HHHHHHHHHhCCCcEEEEcCccccCceEEeCCCcEEEEeCC
Confidence 345678999999987 69999999998744333555443
No 43
>PRK14678 hypothetical protein; Provisional
Probab=22.00 E-value=1.1e+02 Score=22.31 Aligned_cols=29 Identities=24% Similarity=0.563 Sum_probs=24.5
Q ss_pred HHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEE
Q psy4197 24 VVEFLTEMGCRMDFEYISRGYMFRKGRMKILVS 56 (124)
Q Consensus 24 ~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs 56 (124)
+..||...||+. +...|.++.|.|.|...
T Consensus 16 A~~~L~~~Gy~I----l~rN~r~~~GEIDiIa~ 44 (120)
T PRK14678 16 AAAYLERCGYTI----IARNWRCRAGEIDIVAR 44 (120)
T ss_pred HHHHHHHCCCEE----eeeeecCCCCCEeeeEE
Confidence 578999999765 88999999999999864
No 44
>PF09409 PUB: PUB domain; InterPro: IPR018997 The PUB (also known as PUG) domain is found in peptide N-glycanase where it functions as a AAA ATPase binding domain []. This domain is also found on other proteins linked to the ubiquitin-proteasome system. ; PDB: 2CM0_A 2CCQ_A 2D5U_A 2HPL_A 2HPJ_A.
Probab=21.80 E-value=78 Score=21.11 Aligned_cols=17 Identities=24% Similarity=0.243 Sum_probs=11.8
Q ss_pred ccHHHHHHHhCcceeeE
Q psy4197 22 CTVVEFLTEMGCRMDFE 38 (124)
Q Consensus 22 ~n~~~Fl~~LGfr~D~E 38 (124)
+...+||..+||+.+.+
T Consensus 47 ~g~~~~L~~~GF~~~~~ 63 (87)
T PF09409_consen 47 PGARELLEALGFREVTD 63 (87)
T ss_dssp TTHHHHHHHHT-EE---
T ss_pred hhHHHHHHHCCCEEecC
Confidence 56899999999999865
No 45
>PF09893 DUF2120: Uncharacterized protein conserved in archaea (DUF2120); InterPro: IPR014515 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=21.77 E-value=25 Score=27.20 Aligned_cols=41 Identities=22% Similarity=0.381 Sum_probs=29.2
Q ss_pred CCCceeeeeeeEe-ecccc---------HHHHHHHhCcceeeEEEEeeeeE
Q psy4197 6 KARPTIVRSSIDV-ACSCT---------VVEFLTEMGCRMDFEYISRGYMF 46 (124)
Q Consensus 6 ~~~~~lVRs~vdv-~~S~n---------~~~Fl~~LGfr~D~Eyl~~G~~f 46 (124)
++.+..||++.++ .-|+. +-+=|+.|||.-||-.-.+|.++
T Consensus 74 de~~~~ir~i~e~~~es~~~~D~~GferlKesfE~mGc~~dY~igkk~~~~ 124 (146)
T PF09893_consen 74 DEILEFIRSINEIFGESDIYPDEFGFERLKESFEAMGCECDYKIGKKGNLM 124 (146)
T ss_pred HHHHHHHHHHHHhccCCccchhhhHHHHHHHHHHhcCceEEEEEeccCCeE
Confidence 4567789999984 44444 23458999999999876666544
No 46
>PF08608 Wyosine_form: Wyosine base formation; InterPro: IPR013917 The proteins in this entry appear to be important in wyosine base formation in a subset of phenylalanine specific tRNAs. It has been proposed that it participates in converting tRNA(Phe)-m(1)G(37) to tRNA(Phe)-yW []. ; PDB: 2YX0_A 2Z2U_A.
Probab=21.69 E-value=1e+02 Score=20.16 Aligned_cols=30 Identities=33% Similarity=0.400 Sum_probs=19.1
Q ss_pred eEEEEEeeCCC--CC-------chH--HHHHHHHHHhccccee
Q psy4197 78 YLVELSILAPG--GQ-------DVI--GEDMKAFAEQLKPLVQ 109 (124)
Q Consensus 78 ~LVEiSvlap~--~~-------d~~--a~~ir~FAE~L~Plv~ 109 (124)
..|||- |+. |. +|+ .+++..||+.|.-...
T Consensus 5 ~fVEvK--a~~~~G~s~~rLt~~nmp~h~eV~~F~~~l~~~~~ 45 (62)
T PF08608_consen 5 DFVEVK--AYMHVGYSRNRLTMGNMPWHEEVLDFAEELAELLG 45 (62)
T ss_dssp SEEEEE--E------------GGGS--HHHHHHHHHHHHTTST
T ss_pred cEEEEe--cCcccccccCccccCCCCcHHHHHHHHHHHHhhcC
Confidence 468877 444 42 233 8999999999976543
No 47
>TIGR03399 RNA_3prim_cycl RNA 3'-phosphate cyclase. Members of this protein family are RNA 3'-phosphate cyclase (6.5.1.4), an enzyme whose function is conserved from E. coli to human. The modification this enzyme performs enables certain RNA ligations to occur, although the full biological roll for this enzyme is not fully described. This model separates this enzyme from a related protein, present only in eukaryotes, localized to the nucleolus, and involved in ribosomal modification.
Probab=21.59 E-value=3.6e+02 Score=22.84 Aligned_cols=36 Identities=31% Similarity=0.613 Sum_probs=26.5
Q ss_pred HHHHHHhCcceeeEEEEeeeeEe-eeeeEEEEEEeee
Q psy4197 25 VEFLTEMGCRMDFEYISRGYMFR-KGRMKILVSKIFK 60 (124)
Q Consensus 25 ~~Fl~~LGfr~D~Eyl~~G~~f~-kg~ikI~Vs~i~k 60 (124)
+-+|+.+|...+.+..+.||.=+ .|.+.+.+.-+.+
T Consensus 136 lP~l~~~G~~~~l~v~rRG~yP~GGGeV~~~i~p~~~ 172 (326)
T TIGR03399 136 LPLLERMGIRAELELLRRGFYPRGGGEVRLRVEPVKK 172 (326)
T ss_pred HHHHHhCCCcEEEEEEeCCcCCCCCEEEEEEEccccC
Confidence 34567899999999999999644 4566666665544
No 48
>PF04023 FeoA: FeoA domain; InterPro: IPR007167 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria. This domain also occurs at the C terminus in related proteins. The transporter Feo is composed of three proteins: FeoA a small, soluble SH3-domain protein probably located in the cytosol; FeoB, a large protein with a cytosolic N-terminal G-protein domain and a C-terminal integral inner-membrane domain containing two 'Gate' motifs which likely functions as the Fe2+ permease; and FeoC, a small protein apparently functioning as an [Fe-S]-dependent transcriptional repressor [, ]. Feo allows the bacterial cell to acquire iron from its environment. ; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 1G3T_A 1C0W_B 1BI3_A 1QVP_A 1BI1_A 1BYM_A 2QQB_A ....
Probab=21.58 E-value=1.8e+02 Score=18.21 Aligned_cols=35 Identities=17% Similarity=0.044 Sum_probs=22.7
Q ss_pred cccHHHHHHHhCcceeeEEEEeeeeEeeeeeEEEE
Q psy4197 21 SCTVVEFLTEMGCRMDFEYISRGYMFRKGRMKILV 55 (124)
Q Consensus 21 S~n~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~V 55 (124)
+..++++|.+||+...-+.-..-..-.+|.+.|.+
T Consensus 21 d~~~~~~L~~lGl~~G~~i~v~~~~~~~~~~~i~~ 55 (74)
T PF04023_consen 21 DPELLRRLADLGLTPGSEITVIRKNPFGGPVVIKV 55 (74)
T ss_dssp SHHHHHHHHHCT-STTEEEEEEEEETTSSEEEEEE
T ss_pred CHHHHHHHHHCCCCCCCEEEEEEeCCCCCCEEEEE
Confidence 58999999999999877665554322244444444
No 49
>PTZ00244 serine/threonine-protein phosphatase PP1; Provisional
Probab=21.35 E-value=1e+02 Score=25.71 Aligned_cols=36 Identities=25% Similarity=0.360 Sum_probs=27.8
Q ss_pred ccHHHHHHHhCcce---eeEEEEeeeeEeeeeeEEEEEE
Q psy4197 22 CTVVEFLTEMGCRM---DFEYISRGYMFRKGRMKILVSK 57 (124)
Q Consensus 22 ~n~~~Fl~~LGfr~---D~Eyl~~G~~f~kg~ikI~Vs~ 57 (124)
..+-+||++.|+++ -||++.+||.|....--|||-+
T Consensus 225 ~~~~~Fl~~n~l~~iiR~Hq~~~~G~~~~~~~~~iTvfS 263 (294)
T PTZ00244 225 DIVNDFLDMVDMDLIVRAHQVMERGYGFFASRQLVTVFS 263 (294)
T ss_pred HHHHHHHHHcCCcEEEEcCccccCceEEcCCCeEEEEeC
Confidence 34789999999987 6999999999875444455544
No 50
>PRK12497 hypothetical protein; Reviewed
Probab=21.32 E-value=1.1e+02 Score=21.91 Aligned_cols=29 Identities=21% Similarity=0.566 Sum_probs=24.1
Q ss_pred HHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEE
Q psy4197 24 VVEFLTEMGCRMDFEYISRGYMFRKGRMKILVS 56 (124)
Q Consensus 24 ~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs 56 (124)
+..||...||+. +...|.++.|.|.|...
T Consensus 16 A~~~L~~~Gy~I----l~rN~r~~~GEIDiIa~ 44 (119)
T PRK12497 16 AARYLESKGLRI----LARNFRCRFGEIDLIAR 44 (119)
T ss_pred HHHHHHHCCCEE----EcceecCCCCcEeeeEE
Confidence 578999999765 78888888999998875
No 51
>cd01523 RHOD_Lact_B Member of the Rhodanese Homology Domain superfamily. This CD includes predicted proteins with rhodanese-like domains found N-terminal of the metallo-beta-lactamase domain.
Probab=21.00 E-value=91 Score=20.45 Aligned_cols=35 Identities=26% Similarity=0.374 Sum_probs=21.1
Q ss_pred CCceeeeeeeEeeccccHHHHHHHhCcceeeEEEEeee
Q psy4197 7 ARPTIVRSSIDVACSCTVVEFLTEMGCRMDFEYISRGY 44 (124)
Q Consensus 7 ~~~~lVRs~vdv~~S~n~~~Fl~~LGfr~D~Eyl~~G~ 44 (124)
++|+++ -|=.-.-|..+...|..+||+ -=++.-|+
T Consensus 61 ~~~ivv-~C~~G~rs~~aa~~L~~~G~~--~~~l~GG~ 95 (100)
T cd01523 61 DQEVTV-ICAKEGSSQFVAELLAERGYD--VDYLAGGM 95 (100)
T ss_pred CCeEEE-EcCCCCcHHHHHHHHHHcCce--eEEeCCcH
Confidence 344444 233334567888999999997 33444443
No 52
>PRK14675 hypothetical protein; Provisional
Probab=20.86 E-value=1.7e+02 Score=21.44 Aligned_cols=30 Identities=20% Similarity=0.538 Sum_probs=24.9
Q ss_pred HHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEEE
Q psy4197 24 VVEFLTEMGCRMDFEYISRGYMFRKGRMKILVSK 57 (124)
Q Consensus 24 ~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs~ 57 (124)
+..||.+.||+. +...|.++.|-|.|...+
T Consensus 18 A~~~L~~~G~~i----l~rn~r~~~GEIDlIa~d 47 (125)
T PRK14675 18 AVTYLKGLRYKI----VERNFRCRCGEIDIIARD 47 (125)
T ss_pred HHHHHHHCCCEE----EEEEEeCCCCeEEEEEEe
Confidence 578999999876 788888889999887654
No 53
>PRK14688 hypothetical protein; Provisional
Probab=20.02 E-value=1.6e+02 Score=21.56 Aligned_cols=29 Identities=24% Similarity=0.485 Sum_probs=24.4
Q ss_pred HHHHHHHhCcceeeEEEEeeeeEeeeeeEEEEE
Q psy4197 24 VVEFLTEMGCRMDFEYISRGYMFRKGRMKILVS 56 (124)
Q Consensus 24 ~~~Fl~~LGfr~D~Eyl~~G~~f~kg~ikI~Vs 56 (124)
+..||...||+. +...|.++.|-|.|...
T Consensus 16 A~~~L~~~Gy~I----l~rN~r~~~GEIDiIa~ 44 (121)
T PRK14688 16 AAEYLKGMGYSI----IQTNCRLPEGEIDIVGQ 44 (121)
T ss_pred HHHHHHHCCCEE----EEEEeeCCCCcEeEEEe
Confidence 578999998765 89999999999999864
Done!