Query psy3819
Match_columns 122
No_of_seqs 35 out of 37
Neff 1.6
Searched_HMMs 46136
Date Fri Aug 16 18:11:18 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3819.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3819hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01766 Ufm1 Urm1-like ubiquit 100.0 2.8E-33 6.1E-38 197.6 3.2 46 75-120 37-82 (82)
2 KOG3483|consensus 100.0 2.3E-31 5E-36 191.3 3.5 46 76-121 49-94 (94)
3 PF03671 Ufm1: Ubiquitin fold 99.9 7.4E-26 1.6E-30 158.1 1.4 40 75-114 37-76 (76)
4 cd01806 Nedd8 Nebb8-like ubiq 64.8 7.8 0.00017 23.5 2.5 43 77-120 34-76 (76)
5 KOG0156|consensus 63.8 7 0.00015 33.6 2.9 58 33-98 342-400 (489)
6 PF04270 Strep_his_triad: Stre 50.4 20 0.00043 23.6 2.7 33 87-119 2-38 (53)
7 cd00196 UBQ Ubiquitin-like pro 42.0 27 0.00059 17.6 2.0 39 77-116 31-69 (69)
8 PF04083 Abhydro_lipase: Parti 34.3 41 0.00089 21.8 2.3 32 77-108 8-51 (63)
9 PRK10600 nitrate/nitrite senso 33.8 39 0.00084 27.9 2.6 34 84-117 502-544 (569)
10 PRK10935 nitrate/nitrite senso 32.9 46 0.001 26.5 2.8 37 84-120 505-550 (565)
11 PF11142 DUF2917: Protein of u 32.0 39 0.00086 21.8 1.9 28 85-119 27-54 (63)
12 PRK02098 phosphoribosyl-dephos 29.0 33 0.00071 27.2 1.4 37 83-119 177-216 (221)
13 PF14361 RsbRD_N: RsbT co-anta 28.0 9 0.00019 25.9 -1.7 14 92-105 80-93 (105)
14 cd03578 NTR_netrin-4_like NTR 28.0 36 0.00079 25.0 1.4 21 15-35 56-76 (111)
15 TIGR01386 cztS_silS_copS heavy 26.1 24 0.00052 26.7 0.2 14 85-98 388-401 (457)
16 KOG0259|consensus 24.8 64 0.0014 29.2 2.6 55 38-106 163-218 (447)
17 PF09338 Gly_reductase: Glycin 24.0 42 0.0009 29.7 1.3 16 81-97 303-318 (428)
18 PF11136 DUF2889: Protein of u 23.3 49 0.0011 23.3 1.3 21 37-60 84-104 (117)
19 COG1184 GCD2 Translation initi 22.4 40 0.00086 28.4 0.8 20 77-97 269-290 (301)
20 cd00075 HATPase_c Histidine ki 21.5 52 0.0011 18.5 1.0 16 83-98 34-49 (103)
21 PF09830 ATP_transf: ATP adeny 21.5 20 0.00044 23.2 -0.9 25 89-113 22-46 (62)
22 PRK00083 frr ribosome recyclin 20.3 29 0.00063 26.6 -0.4 54 45-99 38-94 (185)
23 COG0468 RecA RecA/RadA recombi 20.2 60 0.0013 26.5 1.4 36 81-116 185-226 (279)
No 1
>cd01766 Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.
Probab=99.97 E-value=2.8e-33 Score=197.59 Aligned_cols=46 Identities=74% Similarity=1.097 Sum_probs=44.7
Q ss_pred ccccCCCcceeEEccCCcccCccCcccceeeecCceeeeeecCCCC
Q psy3819 75 GLGECPLVTSAIITDDGIGINPQQTAGTVFMKHGCELRLIPRDRVG 120 (122)
Q Consensus 75 gqfkV~~aTSAIITndGiGINP~QTAG~vflKhGseLrlIPRDRVG 120 (122)
.+||||++|||||||||+||||+|||||||||||||||||||||||
T Consensus 37 EeFkv~~~TsAiiTndGvGINP~qtAGnvflkhgselrliPRDrvG 82 (82)
T cd01766 37 EEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRLIPRDRVG 82 (82)
T ss_pred HhcCCCccceeEEecCccccChhhcccceeeecCCEeeecccccCC
Confidence 3599999999999999999999999999999999999999999998
No 2
>KOG3483|consensus
Probab=99.97 E-value=2.3e-31 Score=191.30 Aligned_cols=46 Identities=74% Similarity=1.110 Sum_probs=44.7
Q ss_pred cccCCCcceeEEccCCcccCccCcccceeeecCceeeeeecCCCCC
Q psy3819 76 LGECPLVTSAIITDDGIGINPQQTAGTVFMKHGCELRLIPRDRVGS 121 (122)
Q Consensus 76 qfkV~~aTSAIITndGiGINP~QTAG~vflKhGseLrlIPRDRVG~ 121 (122)
.||||++||||||||||||||+|||||||||||||||||||||||+
T Consensus 49 efkvpaatsaiitndgiginpaq~agnvflkhgselr~iprdrvg~ 94 (94)
T KOG3483|consen 49 EFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRIIPRDRVGS 94 (94)
T ss_pred HccCCccceeEEecCccccCccccccceeeccCCEEEeccccccCC
Confidence 3999999999999999999999999999999999999999999995
No 3
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=99.91 E-value=7.4e-26 Score=158.08 Aligned_cols=40 Identities=70% Similarity=1.006 Sum_probs=34.7
Q ss_pred ccccCCCcceeEEccCCcccCccCcccceeeecCceeeee
Q psy3819 75 GLGECPLVTSAIITDDGIGINPQQTAGTVFMKHGCELRLI 114 (122)
Q Consensus 75 gqfkV~~aTSAIITndGiGINP~QTAG~vflKhGseLrlI 114 (122)
.+||||++|||||||||+||||+||||+||||||||||||
T Consensus 37 eeF~vp~~tsaiItndG~GInP~QTag~vflKhGseLrli 76 (76)
T PF03671_consen 37 EEFKVPPATSAIITNDGVGINPQQTAGNVFLKHGSELRLI 76 (76)
T ss_dssp HHTTS-SSSEEEEESSS-EE-TTSBHHHHHHHT-SEEEEE
T ss_pred HHcCCCCceEEEEecCCcccccchhhhhhHhhcCcEeeeC
Confidence 3599999999999999999999999999999999999998
No 4
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=64.77 E-value=7.8 Score=23.47 Aligned_cols=43 Identities=26% Similarity=0.295 Sum_probs=34.5
Q ss_pred ccCCCcceeEEccCCcccCccCcccceeeecCceeeeeecCCCC
Q psy3819 77 GECPLVTSAIITDDGIGINPQQTAGTVFMKHGCELRLIPRDRVG 120 (122)
Q Consensus 77 fkV~~aTSAIITndGiGINP~QTAG~vflKhGseLrlIPRDRVG 120 (122)
+.+++..-.++ -+|.-++..+|....=++.|+.|.+++|.|-|
T Consensus 34 ~g~~~~~qrL~-~~g~~L~d~~tl~~~~i~~g~~i~l~~~~~gg 76 (76)
T cd01806 34 EGIPPQQQRLI-YSGKQMNDDKTAADYKLEGGSVLHLVLALRGG 76 (76)
T ss_pred hCCChhhEEEE-ECCeEccCCCCHHHcCCCCCCEEEEEEEccCC
Confidence 34666665555 56888889999999999999999999998755
No 5
>KOG0156|consensus
Probab=63.80 E-value=7 Score=33.56 Aligned_cols=58 Identities=26% Similarity=0.485 Sum_probs=46.4
Q ss_pred EEeehhhHHHHhhcceeeeCCCccccccC-CCCCcCCCCCceeccccCCCcceeEEccCCcccCccC
Q psy3819 33 VVYLPYFTKQVRRGLRVSQGGTGCTYPIL-PNRSEEDCECPRVGLGECPLVTSAIITDDGIGINPQQ 98 (122)
Q Consensus 33 iV~l~~~~KQi~R~i~~~~~~~~C~~~~~-~n~~~~DC~~~~~gqfkV~~aTSAIITndGiGINP~Q 98 (122)
+..+||++--|..-+|-.- -.|++ |+...+|| .++-|.||.-|-.++---+++.||..
T Consensus 342 ~~~lpYL~Avi~E~~Rl~p-----~~Pl~~ph~~~~d~---~i~Gy~IPkgT~v~vn~~ai~rDp~v 400 (489)
T KOG0156|consen 342 LPKLPYLKAVIKETLRLHP-----PLPLLLPRETTEDT---KIGGYDIPKGTTVLVNLWAIHRDPKV 400 (489)
T ss_pred hccCHHHHHHHHHHHhcCC-----CccccccccccCCe---eEcCEEcCCCCEEEEeehhhhcCCcc
Confidence 3578999999998777654 33543 78999999 67779999999988888899998864
No 6
>PF04270 Strep_his_triad: Streptococcal histidine triad protein ; InterPro: IPR006270 This entry represents a repeated sequence region that includes a His-X-X-His-X-His (histidine triad) motif, which is found in family of Streptococcal proteins. Members of the family are suggested to cleave human complement component 3, and family member PhpA has been shown in vaccine studies to be a protective antigen in mice []. ; PDB: 2CS7_C.
Probab=50.40 E-value=20 Score=23.56 Aligned_cols=33 Identities=27% Similarity=0.525 Sum_probs=23.1
Q ss_pred EccCCcccCccC----cccceeeecCceeeeeecCCC
Q psy3819 87 ITDDGIGINPQQ----TAGTVFMKHGCELRLIPRDRV 119 (122)
Q Consensus 87 ITndGiGINP~Q----TAG~vflKhGseLrlIPRDRV 119 (122)
.|+||.-.||.+ ++-.+-+.||.-...||..-+
T Consensus 2 ~t~DGyvFdp~dI~~~~~~gy~vpHgdH~HyI~k~dL 38 (53)
T PF04270_consen 2 TTSDGYVFDPADIISETGDGYVVPHGDHFHYIPKSDL 38 (53)
T ss_dssp B-TTS-B--GGG--EE-SSEEEEEETTEEEEEEGGGS
T ss_pred cCCCCceeCHHHccccCCCeEEeeCCCcccCCchhhC
Confidence 389999999986 455678999999999998643
No 7
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=42.04 E-value=27 Score=17.56 Aligned_cols=39 Identities=23% Similarity=0.232 Sum_probs=24.4
Q ss_pred ccCCCcceeEEccCCcccCccCcccceeeecCceeeeeec
Q psy3819 77 GECPLVTSAIITDDGIGINPQQTAGTVFMKHGCELRLIPR 116 (122)
Q Consensus 77 fkV~~aTSAIITndGiGINP~QTAG~vflKhGseLrlIPR 116 (122)
+++++...++..+.+.- ....+.....++.|+++.++|+
T Consensus 31 ~~~~~~~~~l~~~~~~~-~~~~~~~~~~~~~~~~i~~~~~ 69 (69)
T cd00196 31 LGLPPEQQRLLVNGKIL-PDSLTLEDYGLQDGDELVLVPR 69 (69)
T ss_pred HCcChHHeEEEECCeEC-CCCCcHHHcCCCCCCEEEEEeC
Confidence 33556666666654433 3334446778888998888874
No 8
>PF04083 Abhydro_lipase: Partial alpha/beta-hydrolase lipase region; InterPro: IPR006693 The alpha/beta hydrolase fold is common to several hydrolytic enzymes of widely differing phylogenetic origin and catalytic function. The core of each enzyme is similar: an alpha/beta sheet, not barrel, of eight beta-sheets connected by alpha-helices []. This entry represents the N-terminal part of an alpha/beta hydrolase domain found in a number of lipases.; GO: 0006629 lipid metabolic process; PDB: 1K8Q_B 1HLG_B.
Probab=34.35 E-value=41 Score=21.78 Aligned_cols=32 Identities=25% Similarity=0.460 Sum_probs=15.6
Q ss_pred ccCCCcceeEEccCCccc------------CccCcccceeeecC
Q psy3819 77 GECPLVTSAIITDDGIGI------------NPQQTAGTVFMKHG 108 (122)
Q Consensus 77 fkV~~aTSAIITndGiGI------------NP~QTAG~vflKhG 108 (122)
+..+.+.--++|.||.=+ +....-.-|||-||
T Consensus 8 ~GY~~E~h~V~T~DGYiL~l~RIp~~~~~~~~~~~k~pVll~HG 51 (63)
T PF04083_consen 8 HGYPCEEHEVTTEDGYILTLHRIPPGKNSSNQNKKKPPVLLQHG 51 (63)
T ss_dssp TT---EEEEEE-TTSEEEEEEEE-SBTTCTTTTTT--EEEEE--
T ss_pred cCCCcEEEEEEeCCCcEEEEEEccCCCCCcccCCCCCcEEEECC
Confidence 445666677888888622 23345566999998
No 9
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=33.76 E-value=39 Score=27.90 Aligned_cols=34 Identities=15% Similarity=0.230 Sum_probs=22.4
Q ss_pred eeEEccCCcccCccCcccc---------eeeecCceeeeeecC
Q psy3819 84 SAIITDDGIGINPQQTAGT---------VFMKHGCELRLIPRD 117 (122)
Q Consensus 84 SAIITndGiGINP~QTAG~---------vflKhGseLrlIPRD 117 (122)
...|+++|+||+|....|+ +--+||.++.+..+.
T Consensus 502 ~l~V~D~G~Gi~~~~~~~~glGL~i~~~~~~~lgG~l~i~s~~ 544 (569)
T PRK10600 502 KLSVQDNGCGVPENAERSNHYGLIIMRDRAQSLRGDCRVRRRE 544 (569)
T ss_pred EEEEEECCCCCCccccCCCCccHHHHHHHHHHcCCEEEEEECC
Confidence 3567899999998764432 112577777776554
No 10
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=32.88 E-value=46 Score=26.54 Aligned_cols=37 Identities=27% Similarity=0.331 Sum_probs=25.6
Q ss_pred eeEEccCCcccCccCcccce---------eeecCceeeeeecCCCC
Q psy3819 84 SAIITDDGIGINPQQTAGTV---------FMKHGCELRLIPRDRVG 120 (122)
Q Consensus 84 SAIITndGiGINP~QTAG~v---------flKhGseLrlIPRDRVG 120 (122)
...|+++|.||+|...-|.= .-+||.++.+-....-|
T Consensus 505 ~i~V~D~G~Gi~~~~~~~~glGL~i~~~iv~~~~G~i~v~s~~~~G 550 (565)
T PRK10935 505 TVSIRDDGIGIGELKEPEGHYGLNIMQERAERLGGTLTISQPPGGG 550 (565)
T ss_pred EEEEEECCcCcCCCCCCCCCcCHHHHHHHHHHcCCEEEEEECCCCc
Confidence 35679999999997664431 22688888887655433
No 11
>PF11142 DUF2917: Protein of unknown function (DUF2917); InterPro: IPR021317 This bacterial family of proteins appears to be restricted to Proteobacteria.
Probab=31.96 E-value=39 Score=21.79 Aligned_cols=28 Identities=29% Similarity=0.468 Sum_probs=23.5
Q ss_pred eEEccCCcccCccCcccceeeecCceeeeeecCCC
Q psy3819 85 AIITDDGIGINPQQTAGTVFMKHGCELRLIPRDRV 119 (122)
Q Consensus 85 AIITndGiGINP~QTAG~vflKhGseLrlIPRDRV 119 (122)
+=||-+| ..+.+||.-|..|+|.+..||
T Consensus 27 vWlT~~g-------~~~D~~L~~G~~l~l~~g~~v 54 (63)
T PF11142_consen 27 VWLTREG-------DPDDYWLQAGDSLRLRRGGRV 54 (63)
T ss_pred EEEECCC-------CCCCEEECCCCEEEeCCCCEE
Confidence 5678888 578999999999999887765
No 12
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional
Probab=29.00 E-value=33 Score=27.22 Aligned_cols=37 Identities=24% Similarity=0.454 Sum_probs=30.5
Q ss_pred ceeEEccCCcccCccCcc---cceeeecCceeeeeecCCC
Q psy3819 83 TSAIITDDGIGINPQQTA---GTVFMKHGCELRLIPRDRV 119 (122)
Q Consensus 83 TSAIITndGiGINP~QTA---G~vflKhGseLrlIPRDRV 119 (122)
..=|.|.+|-|+|=..-+ ++|.+|+-...+|.+|+-+
T Consensus 177 Dgel~~p~G~~va~rE~~~~~~~VL~Kt~~G~~L~~~~~~ 216 (221)
T PRK02098 177 DGELLLADGAGVNWRELHARAREVLVKTADGVELLPRAAF 216 (221)
T ss_pred eEEEECCCCCeeeHHHHhCCCCcEEEEcCCCCEEeEHHHh
Confidence 345789999999977654 4899999999999999754
No 13
>PF14361 RsbRD_N: RsbT co-antagonist protein rsbRD N-terminal domain
Probab=28.01 E-value=9 Score=25.86 Aligned_cols=14 Identities=43% Similarity=0.679 Sum_probs=11.5
Q ss_pred cccCccCcccceee
Q psy3819 92 IGINPQQTAGTVFM 105 (122)
Q Consensus 92 iGINP~QTAG~vfl 105 (122)
-|.+|+|||+.||.
T Consensus 80 Qgftpseta~fvf~ 93 (105)
T PF14361_consen 80 QGFTPSETASFVFA 93 (105)
T ss_pred CCCCHHHHHHHHHH
Confidence 37899999998883
No 14
>cd03578 NTR_netrin-4_like NTR domain, Netrin-4-like subfamily; composed of the C-terminal NTR domains of netrin-4 (beta netrin) and similar proteins. Netrins are secreted proteins that function as tropic cues in the direction of axon growth and cell migration during neural development. Netrin-4 is a basement membrane component that is important in neural, kidney and vascular development. It may also be involved in regulating the outgrowth and shape of epithelial cells during lung branching morphogenesis.
Probab=27.96 E-value=36 Score=24.97 Aligned_cols=21 Identities=29% Similarity=0.474 Sum_probs=17.6
Q ss_pred CCCcccCCCccccCCcceEEe
Q psy3819 15 RSEEDCECPRVGLGECPLVVY 35 (122)
Q Consensus 15 ~~~~~~~~~~~~~~E~~LiV~ 35 (122)
..+-.|.||++-.|++.||.=
T Consensus 56 ~~~~~C~CPkL~~g~~YLIlG 76 (111)
T cd03578 56 WTSRGCTCPILNPGLEYLVAG 76 (111)
T ss_pred cccccCcCCcccCCCEEEEEc
Confidence 356679999999999999863
No 15
>TIGR01386 cztS_silS_copS heavy metal sensor kinase. Members of this family contain a sensor histidine kinase domain (Pfam:PF00512) and a domain found in bacterial signal proteins (Pfam:PF00672). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc.
Probab=26.14 E-value=24 Score=26.67 Aligned_cols=14 Identities=29% Similarity=0.681 Sum_probs=11.3
Q ss_pred eEEccCCcccCccC
Q psy3819 85 AIITDDGIGINPQQ 98 (122)
Q Consensus 85 AIITndGiGINP~Q 98 (122)
..|+|+|.||+|.+
T Consensus 388 i~v~D~G~g~~~~~ 401 (457)
T TIGR01386 388 VSVSNPGPGIPPEH 401 (457)
T ss_pred EEEEeCCCCCCHHH
Confidence 55789999998853
No 16
>KOG0259|consensus
Probab=24.76 E-value=64 Score=29.18 Aligned_cols=55 Identities=33% Similarity=0.520 Sum_probs=40.1
Q ss_pred hhHHHHhhcceeeeCCCccccccCCCCCcC-CCCCceeccccCCCcceeEEccCCcccCccCcccceeee
Q psy3819 38 YFTKQVRRGLRVSQGGTGCTYPILPNRSEE-DCECPRVGLGECPLVTSAIITDDGIGINPQQTAGTVFMK 106 (122)
Q Consensus 38 ~~~KQi~R~i~~~~~~~~C~~~~~~n~~~~-DC~~~~~gqfkV~~aTSAIITndGiGINP~QTAG~vflK 106 (122)
|-+..+..+||+.| |.+||..+-+ |=...| --+.-.|-||+- |||.+--||||-|
T Consensus 163 Y~~~a~~~~lEVR~------ydlLPe~~weIDL~~ve---al~DENT~Aivv-----iNP~NPcGnVys~ 218 (447)
T KOG0259|consen 163 YDTRAIYSGLEVRY------YDLLPEKDWEIDLDGVE---ALADENTVAIVV-----INPNNPCGNVYSE 218 (447)
T ss_pred HHHhhhhcCceeEe------ecccCcccceechHHHH---HhhccCeeEEEE-----eCCCCCCcccccH
Confidence 67788899999999 9999976532 222222 235667888865 7999999999964
No 17
>PF09338 Gly_reductase: Glycine/sarcosine/betaine reductase component B subunits; InterPro: IPR015417 This is a family of glycine reductase, sarcosine reductase and betaine reductases. These enzymes catalyse the following reactions: sarcosine reductase: Acetyl phosphate + methylamine + thioredoxin disulphide = N-methylglycine + phosphate + thioredoxin. glycine reductase: Acetyl phosphate + NH3 + thioredoxin disulphide = glycine + phosphate + thioredoxin. betaine reductase: Acetyl phosphate + trimethylamine + thioredoxin disulphide = N,N,N-trimethylglycine + phosphate + thioredoxin. ; GO: 0050485 oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond, with a disulfide as acceptor, 0055114 oxidation-reduction process
Probab=24.02 E-value=42 Score=29.72 Aligned_cols=16 Identities=38% Similarity=0.812 Sum_probs=13.4
Q ss_pred CcceeEEccCCcccCcc
Q psy3819 81 LVTSAIITDDGIGINPQ 97 (122)
Q Consensus 81 ~aTSAIITndGiGINP~ 97 (122)
-+..||||.+|+| ||.
T Consensus 303 gaDGaIvs~eG~G-N~d 318 (428)
T PF09338_consen 303 GADGAIVSEEGFG-NPD 318 (428)
T ss_pred CCCEEEEEecCCC-chh
Confidence 3678999999999 775
No 18
>PF11136 DUF2889: Protein of unknown function (DUF2889); InterPro: IPR021312 This bacterial family of proteins has no known function.
Probab=23.35 E-value=49 Score=23.32 Aligned_cols=21 Identities=52% Similarity=0.725 Sum_probs=15.2
Q ss_pred hhhHHHHhhcceeeeCCCcccccc
Q psy3819 37 PYFTKQVRRGLRVSQGGTGCTYPI 60 (122)
Q Consensus 37 ~~~~KQi~R~i~~~~~~~~C~~~~ 60 (122)
+-|+|||++-+ -|..||+|-.
T Consensus 84 ~g~r~~v~~~l---gg~~GCTHL~ 104 (117)
T PF11136_consen 84 PGFRKQVRERL---GGTKGCTHLN 104 (117)
T ss_pred ccHHHHHHHHc---CCCCCCcCHH
Confidence 37888887654 4778999954
No 19
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=22.45 E-value=40 Score=28.43 Aligned_cols=20 Identities=40% Similarity=0.451 Sum_probs=15.4
Q ss_pred ccCCCcc--eeEEccCCcccCcc
Q psy3819 77 GECPLVT--SAIITDDGIGINPQ 97 (122)
Q Consensus 77 fkV~~aT--SAIITndGiGINP~ 97 (122)
|.+-|.. +||||+.|+ |+|+
T Consensus 269 fD~TP~~~Id~iITe~G~-~pp~ 290 (301)
T COG1184 269 FDVTPPEYIDAIITELGI-IPPS 290 (301)
T ss_pred cCCCcHHHhheeeecCCC-CCch
Confidence 6655543 599999999 8886
No 20
>cd00075 HATPase_c Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins
Probab=21.55 E-value=52 Score=18.51 Aligned_cols=16 Identities=25% Similarity=0.447 Sum_probs=12.4
Q ss_pred ceeEEccCCcccCccC
Q psy3819 83 TSAIITDDGIGINPQQ 98 (122)
Q Consensus 83 TSAIITndGiGINP~Q 98 (122)
-...|+++|.|++|..
T Consensus 34 ~~v~i~d~g~g~~~~~ 49 (103)
T cd00075 34 LEIRVEDNGPGIPEED 49 (103)
T ss_pred EEEEEEeCCCCCCHHH
Confidence 3467899999998753
No 21
>PF09830 ATP_transf: ATP adenylyltransferase; InterPro: IPR019200 Diadenosine 5',5'''-P-1,P-4-tetraphosphate (Ap4A) and related diadenosine oligoposphates such as Ap3A are important intracellular and extracellular signalling molecules in prokaryotes and eukaryotes []. They are implicated in the regulation of many vital celluar functions including stress response, cell division and apoptosis. Synthesis primarily occurs via aminoacyl-tRNA synthetases adding the AMP moiety of an aminoacyl-AMP to an acceptor nucleotide, and is an inevitable byproduct of protein synthesis. The concentration of these compounds must thus be controlled both to ensure the proper regulation of various celluar processes, but also to prevent their buildup to potentially toxic levels. This domain is found in a group of ATP adenylyltransferases found in bacteria and lower eukaryotes which catalyse the interconversion of Ap4A to ATP and ADP [, , ]. While these enzymes are thought to act primarily to break down Ap4A, there is evidence to suggest that in some circumstances they may also act in a biosynthetic role. Some variability in substrate range is apparent eg the cyanobacterial enzyme can also utilise Ap3A as a substrate, while the Saccharomyces enzymes apparently cannot.; GO: 0003877 ATP adenylyltransferase activity
Probab=21.52 E-value=20 Score=23.16 Aligned_cols=25 Identities=32% Similarity=0.449 Sum_probs=22.0
Q ss_pred cCCcccCccCcccceeeecCceeee
Q psy3819 89 DDGIGINPQQTAGTVFMKHGCELRL 113 (122)
Q Consensus 89 ndGiGINP~QTAG~vflKhGseLrl 113 (122)
++|+++|-.--||.++.|.-+++..
T Consensus 22 ~~~i~~Nalg~~G~llvk~~~~~~~ 46 (62)
T PF09830_consen 22 SGGISVNALGFAGMLLVKSEEELDW 46 (62)
T ss_pred CCceeechhhheeeeeeCCHHHHHH
Confidence 7899999999999999998877653
No 22
>PRK00083 frr ribosome recycling factor; Reviewed
Probab=20.27 E-value=29 Score=26.62 Aligned_cols=54 Identities=17% Similarity=0.250 Sum_probs=31.1
Q ss_pred hcceeeeCCCccccccCCCCCcCCCCCceecccc---CCCcceeEEccCCcccCccCc
Q psy3819 45 RGLRVSQGGTGCTYPILPNRSEEDCECPRVGLGE---CPLVTSAIITDDGIGINPQQT 99 (122)
Q Consensus 45 R~i~~~~~~~~C~~~~~~n~~~~DC~~~~~gqfk---V~~aTSAIITndGiGINP~QT 99 (122)
..|.+.|.|+.=...=+-+++-.|=..+-+-.|- +++..+||.. .+.|+||+..
T Consensus 38 d~I~V~~yg~~~pL~~lA~Isv~~~~~l~I~p~D~~~i~~I~kAI~~-s~lgl~P~~d 94 (185)
T PRK00083 38 DGIKVDYYGSPTPLNQVASISVPEARTLLIQPWDKSMLKAIEKAIRA-SDLGLNPSND 94 (185)
T ss_pred CCeEEEECCCCccHHHceeeecCCCCEEEEEeCCHhHHHHHHHHHHH-CCCCCCcccC
Confidence 4678888666322222445555544444444454 4455566654 6799999874
No 23
>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]
Probab=20.23 E-value=60 Score=26.53 Aligned_cols=36 Identities=31% Similarity=0.433 Sum_probs=28.1
Q ss_pred CcceeEEccC-----Cccc-CccCcccceeeecCceeeeeec
Q psy3819 81 LVTSAIITDD-----GIGI-NPQQTAGTVFMKHGCELRLIPR 116 (122)
Q Consensus 81 ~aTSAIITnd-----GiGI-NP~QTAG~vflKhGseLrlIPR 116 (122)
..+.+|+||. |++. ||..|.|.-.|||-+..|+-=|
T Consensus 185 ~~~~vi~~NQv~~k~~~~f~~~~~~~GG~~L~~~as~rl~l~ 226 (279)
T COG0468 185 YNTAVIFTNQVRAKIGVMFGDPETTTGGNALKFYASVRLDLR 226 (279)
T ss_pred cCcEEEEECceeeecCcccCCcccCCCchHHHhhhheEEEEe
Confidence 4567899985 3322 8999999999999999887544
Done!