Query 029092
Match_columns 199
No_of_seqs 21 out of 23
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 07:22:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029092.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029092hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08095 Toxin_25: Hefutoxin f 61.0 4.3 9.4E-05 24.6 0.8 10 90-99 3-13 (22)
2 PF00615 RGS: Regulator of G p 57.1 23 0.00049 24.6 4.1 39 62-104 2-40 (118)
3 PF05841 Apc15p: Apc15p protei 54.5 6.9 0.00015 31.0 1.3 20 161-180 98-117 (125)
4 COG0064 GatB Asp-tRNAAsn/Glu-t 51.4 18 0.00038 35.5 3.7 37 158-194 274-311 (483)
5 TIGR00133 gatB glutamyl-tRNA(G 45.6 21 0.00045 34.6 3.1 37 158-194 272-309 (478)
6 PF06239 ECSIT: Evolutionarily 39.7 89 0.0019 28.1 5.9 61 101-177 126-190 (228)
7 TIGR01425 SRP54_euk signal rec 39.0 23 0.00049 33.8 2.3 108 47-167 274-395 (429)
8 PRK05477 gatB aspartyl/glutamy 36.2 37 0.0008 32.9 3.3 36 159-194 270-306 (474)
9 PF00514 Arm: Armadillo/beta-c 36.2 20 0.00043 22.2 1.0 21 112-132 3-23 (41)
10 PLN02751 glutamyl-tRNA(Gln) am 35.6 43 0.00094 33.1 3.7 35 158-193 337-373 (544)
11 PRK04028 glutamyl-tRNA(Gln) am 35.3 43 0.00094 33.6 3.7 36 158-194 426-463 (630)
12 TIGR00134 gatE_arch glutamyl-t 29.3 56 0.0012 32.8 3.3 37 158-194 419-456 (620)
13 PF03960 ArsC: ArsC family; I 27.7 26 0.00057 26.1 0.6 30 100-129 24-55 (110)
14 smart00185 ARM Armadillo/beta- 27.2 41 0.00088 19.7 1.3 19 113-131 4-22 (41)
15 PF08109 Antimicrobial14: Lact 26.5 26 0.00057 22.7 0.4 19 124-142 11-29 (31)
16 KOG1539 WD repeat protein [Gen 25.8 87 0.0019 33.1 4.0 86 101-193 690-790 (910)
17 PF13592 HTH_33: Winged helix- 24.8 51 0.0011 22.5 1.6 26 173-198 13-38 (60)
18 PF12174 RST: RCD1-SRO-TAF4 (R 23.8 73 0.0016 23.3 2.3 33 96-130 31-64 (70)
19 cd03034 ArsC_ArsC Arsenate Red 22.7 35 0.00077 25.8 0.5 31 99-129 26-58 (112)
20 PF00533 BRCT: BRCA1 C Terminu 21.9 59 0.0013 21.3 1.4 18 107-124 18-35 (78)
21 KOG0358 Chaperonin complex com 21.6 53 0.0011 32.4 1.6 23 77-100 429-451 (534)
22 PF04192 Utp21: Utp21 specific 21.4 1.2E+02 0.0027 26.4 3.7 37 108-144 20-57 (237)
23 cd00027 BRCT Breast Cancer Sup 20.5 86 0.0019 19.1 1.9 15 108-122 13-27 (72)
No 1
>PF08095 Toxin_25: Hefutoxin family; InterPro: IPR012630 This family consists of the hefutoxins that are found in the venom of the scorpion Heterometrus fulvipes (Indian black scorpion). These toxins, kappa-hefutoxin1 and kappa-hefutoxin2, exhibit no homology to any known toxins. The hefutoxins are potassium channel toxins [].; GO: 0009405 pathogenesis, 0005576 extracellular region; PDB: 1HP9_A.
Probab=60.97 E-value=4.3 Score=24.65 Aligned_cols=10 Identities=50% Similarity=1.228 Sum_probs=6.7
Q ss_pred cch-hHHHHHH
Q 029092 90 DSY-SCWRAYF 99 (199)
Q Consensus 90 es~-sCW~AyF 99 (199)
-|| |||+|=-
T Consensus 3 ~cyrscwk~g~ 13 (22)
T PF08095_consen 3 GCYRSCWKAGH 13 (22)
T ss_dssp -TTTHHHHHHS
T ss_pred chHHHHHHccC
Confidence 356 8999843
No 2
>PF00615 RGS: Regulator of G protein signaling domain; InterPro: IPR000342 RGS (Regulator of G Protein Signalling) proteins are multi-functional, GTPase-accelerating proteins that promote GTP hydrolysis by the alpha subunit of heterotrimeric G proteins, thereby inactivating the G protein and rapidly switching off G protein-coupled receptor signalling pathways []. Upon activation by GPCRs, heterotrimeric G proteins exchange GDP for GTP, are released from the receptor, and dissociate into free, active GTP-bound alpha subunit and beta-gamma dimer, both of which activate downstream effectors. The response is terminated upon GTP hydrolysis by the alpha subunit (IPR001019 from INTERPRO), which can then bind the beta-gamma dimer (IPR001632 from INTERPRO, IPR001770 from INTERPRO) and the receptor. RGS proteins markedly reduce the lifespan of GTP-bound alpha subunits by stabilising the G protein transition state. All RGS proteins contain an 'RGS-box' (or RGS domain), which is required for activity. Some small RGS proteins such as RGS1 and RGS4 are comprised of little more than an RGS domain, while others also contain additional domains that confer further functionality []. RGS domains can be found in conjunction with a variety of domains, including: DEP for membrane targeting (IPR000591 from INTERPRO), PDZ for binding to GPCRs (IPR001478 from INTERPRO), PTB for phosphotyrosine-binding (IPR006020 from INTERPRO), RBD for Ras-binding (IPR003116 from INTERPRO), GoLoco for guanine nucleotide inhibitor activity (IPR003109 from INTERPRO), PX for phosphatidylinositol-binding (IPR001683 from INTERPRO), PXA that is associated with PX (IPR003114 from INTERPRO), PH for stimulating guanine nucleotide exchange (IPR001849 from INTERPRO), and GGL (G protein gamma subunit-like) for binding G protein beta subunits (IPR001770 from INTERPRO) []. Those RGS proteins that contain GGL domains can interact with G protein beta subunits to form novel dimers that prevent G protein gamma subunit binding and G protein alpha subunit association, thereby preventing heterotrimer formation.; GO: 0004871 signal transducer activity; PDB: 2BCJ_A 3PSC_A 3PVU_A 1YM7_B 3PVW_A 1OMW_A 2EBZ_A 2BV1_B 2GTP_D 1CMZ_A ....
Probab=57.14 E-value=23 Score=24.56 Aligned_cols=39 Identities=13% Similarity=0.300 Sum_probs=32.8
Q ss_pred HHHhhcCchhHHhhHhHHhhhhcccCCCcchhHHHHHHhhHHh
Q 029092 62 LERAVKEPSLIEKSENDLADYCSTLEGDDSYSCWRAYFELKDL 104 (199)
Q Consensus 62 l~r~~~e~~LiekaE~~l~DyCstLeGDes~sCW~AyFE~~dl 104 (199)
++.++.+|.. -..+.+||..-.+.+...||.+.-++++.
T Consensus 2 ~~~il~~~~~----~~~F~~Fl~~~~~~~~l~F~~~v~~~~~~ 40 (118)
T PF00615_consen 2 FEKILEDPEG----LELFKEFLEKENCEENLQFWLEVEEFKSS 40 (118)
T ss_dssp HHHHHHSHHH----HHHHHHHHHHTTTTHHHHHHHHHHHHHTS
T ss_pred HHHHHCChHH----HHHHHHHHhHCCCHHHHHHHHHHHHHHhh
Confidence 5667777764 45788999999999999999999999998
No 3
>PF05841 Apc15p: Apc15p protein; InterPro: IPR008402 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. Members of this family are components of the anaphase-promoting complex homologous to subunit Apc15/MND2 [].; GO: 0030071 regulation of mitotic metaphase/anaphase transition, 0031145 anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process, 0005680 anaphase-promoting complex
Probab=54.49 E-value=6.9 Score=30.99 Aligned_cols=20 Identities=40% Similarity=0.654 Sum_probs=16.5
Q ss_pred CCCCCCCCCChHHHHHHHhc
Q 029092 161 RPVPDGLPKTLEELEEEERA 180 (199)
Q Consensus 161 fp~PDgLPKt~eELeEEE~a 180 (199)
.-.|=|++||.++++||++.
T Consensus 98 wikPiGv~KTm~~~~eE~~E 117 (125)
T PF05841_consen 98 WIKPIGVPKTMQQMREEEAE 117 (125)
T ss_pred ceeCCCccHHHHHHHHHHHH
Confidence 55788999999999987754
No 4
>COG0064 GatB Asp-tRNAAsn/Glu-tRNAGln amidotransferase B subunit (PET112 homolog) [Translation, ribosomal structure and biogenesis]
Probab=51.36 E-value=18 Score=35.47 Aligned_cols=37 Identities=32% Similarity=0.372 Sum_probs=30.9
Q ss_pred CCCCCCCCCCCCCh-HHHHHHHhccCCCChHHHHHHhh
Q 029092 158 SSSRPVPDGLPKTL-EELEEEERARMPDSPYTRLLRAK 194 (199)
Q Consensus 158 erpfp~PDgLPKt~-eELeEEE~a~MPeS~~TRLLR~~ 194 (199)
-|+||+||-+|--- +++-++=++.|||=|..|.-|.+
T Consensus 274 YRYfpePDl~p~~is~~~i~~~~~~lPelP~~~~~r~~ 311 (483)
T COG0064 274 YRYFPEPDLPPLEISDEWIEEVRATLPELPDEKRERYI 311 (483)
T ss_pred cccCCCCCcCCccCCHHHHHHHHHhCCCCCHHHHHHHH
Confidence 35799999999766 77777888999999999888765
No 5
>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=45.63 E-value=21 Score=34.55 Aligned_cols=37 Identities=30% Similarity=0.439 Sum_probs=27.7
Q ss_pred CCCCCCCCCCCCCh-HHHHHHHhccCCCChHHHHHHhh
Q 029092 158 SSSRPVPDGLPKTL-EELEEEERARMPDSPYTRLLRAK 194 (199)
Q Consensus 158 erpfp~PDgLPKt~-eELeEEE~a~MPeS~~TRLLR~~ 194 (199)
-|.||+||=.|=.. +++-++=++.|||.|..|..|-.
T Consensus 272 YRyfPEpDLppi~i~~~~i~~i~~~lPElP~~~~~R~~ 309 (478)
T TIGR00133 272 YRYFPEPDLPPINIDELLVKEVAGKLPELPSAKRIRLK 309 (478)
T ss_pred cCCCCCCCCCceecCHHHHHHHHHhCCCCHHHHHHHHH
Confidence 46899999888643 34456678899999998776653
No 6
>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses. ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].
Probab=39.71 E-value=89 Score=28.08 Aligned_cols=61 Identities=26% Similarity=0.367 Sum_probs=40.6
Q ss_pred hHHhhhh--CcHHHHHHHHHHhcCcchh--hhhhhhhhhhhhhhhcCCCCcccccccccccCCCCCCCCCCCCChHHHHH
Q 029092 101 LKDLEKE--LPKEDIEKLILQSGGVKSL--IGCLHGISSIRKAKTDGFASEEKTLGSKRIESSSRPVPDGLPKTLEELEE 176 (199)
Q Consensus 101 ~~dlekE--~Pke~vE~lVrQsGGVKsL--Ig~LH~ia~m~K~kk~~~~s~~~~~~~~~~~erpfp~PDgLPKt~eELeE 176 (199)
|+.||.. .|-.|++.+|.|.=|-+|. -.+-.+.==|.|-| .-+|||.|.-||+++-||+-
T Consensus 126 L~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWmpkfk----------------~~nP~plp~~lP~Dp~eLA~ 189 (228)
T PF06239_consen 126 LEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWMPKFK----------------NINPWPLPRPLPQDPLELAK 189 (228)
T ss_pred HHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHHHHHh----------------ccCCCCCCcCCCCCHHHHHH
Confidence 4455554 7999999999999777752 22222222233332 23589999999999999865
Q ss_pred H
Q 029092 177 E 177 (199)
Q Consensus 177 E 177 (199)
=
T Consensus 190 l 190 (228)
T PF06239_consen 190 L 190 (228)
T ss_pred H
Confidence 3
No 7
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=39.01 E-value=23 Score=33.77 Aligned_cols=108 Identities=12% Similarity=0.188 Sum_probs=59.6
Q ss_pred CCCCCCCCCCCchhHH-HHhh---cCchhHHhhHhHHhhhhcccCCCcchhHHHHHHhhHHhhh-hCcHHHHHHHH---H
Q 029092 47 NAYNVPKLEPFSRTKL-ERAV---KEPSLIEKSENDLADYCSTLEGDDSYSCWRAYFELKDLEK-ELPKEDIEKLI---L 118 (199)
Q Consensus 47 ~~~~iPKlePFsrskl-~r~~---~e~~LiekaE~~l~DyCstLeGDes~sCW~AyFE~~dlek-E~Pke~vE~lV---r 118 (199)
.+..|.-|+||+..++ +|++ .=.+|+||++..+-+. +.-. .. ++|.+ ..-.+|+-.-+ +
T Consensus 274 ~Ge~v~Dle~f~p~~~~~rilgmgDi~~L~ek~~~~~~~~-------~~~~----~~--~k~~~~~f~l~D~~~q~~~i~ 340 (429)
T TIGR01425 274 TGEHIDDFEIFKTQPFISKLLGMGDIEGLIDKVQDLKLDD-------NEKA----LI--EKLKEGTFTLRDMYEQFQNLL 340 (429)
T ss_pred CCCChhhcCcCChHHHHHHHhcCCCcHHHHHHHHHhhhHH-------HHHH----HH--HHHHhCCCCHHHHHHHHHHHH
Confidence 3445788999995554 4554 3468999999865541 1100 10 12222 23444444443 4
Q ss_pred HhcCcchhhhhhhhhhh-hhhhhhc-----CCCCcccccccccccCCCCCCCCCC
Q 029092 119 QSGGVKSLIGCLHGISS-IRKAKTD-----GFASEEKTLGSKRIESSSRPVPDGL 167 (199)
Q Consensus 119 QsGGVKsLIg~LH~ia~-m~K~kk~-----~~~s~~~~~~~~~~~erpfp~PDgL 167 (199)
..|+.+.+++-|-|... +.+.... ...-....-++.|.+||-.|.|+=|
T Consensus 341 kmG~~~~i~~m~Pg~~~~~~~~~~~~~~~~~~~~~~aii~SMT~~Er~~~~p~i~ 395 (429)
T TIGR01425 341 KMGPLGQILSMIPGFSTDFMSKGNEEESMAKIKKLMTIMDSMTDQELDSTDGKVF 395 (429)
T ss_pred hccCHHHHHHhCcCcchhhhhhhcccccHHHHHhHHHHHhcCCHHHHccCCCccc
Confidence 45999999999887652 3111111 1111223334578888877666655
No 8
>PRK05477 gatB aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated
Probab=36.23 E-value=37 Score=32.88 Aligned_cols=36 Identities=33% Similarity=0.422 Sum_probs=28.0
Q ss_pred CCCCCCCCCCCCh-HHHHHHHhccCCCChHHHHHHhh
Q 029092 159 SSRPVPDGLPKTL-EELEEEERARMPDSPYTRLLRAK 194 (199)
Q Consensus 159 rpfp~PDgLPKt~-eELeEEE~a~MPeS~~TRLLR~~ 194 (199)
|.||+||=.|=.. +++-++=++.|||.|-.|.-|-.
T Consensus 270 RyfPepDlppi~i~~~~i~~i~~~lPelP~~~~~rl~ 306 (474)
T PRK05477 270 RYFPEPDLPPLEISDEWIEEIRAELPELPDAKRARFV 306 (474)
T ss_pred CCCCCCCCCceecCHHHHHHHHHhCCCCHHHHHHHHH
Confidence 7899999888643 45556678899999988877754
No 9
>PF00514 Arm: Armadillo/beta-catenin-like repeat; InterPro: IPR000225 The armadillo (Arm) repeat is an approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila melanogaster segment polarity gene armadillo involved in signal transduction through wingless. Animal Arm-repeat proteins function in various processes, including intracellular signalling and cytoskeletal regulation, and include such proteins as beta-catenin, the junctional plaque protein plakoglobin, the adenomatous polyposis coli (APC) tumour suppressor protein, and the nuclear transport factor importin-alpha, amongst others []. A subset of these proteins is conserved across eukaryotic kingdoms. In higher plants, some Arm-repeat proteins function in intracellular signalling like their mammalian counterparts, while others have novel functions []. The 3-dimensional fold of an armadillo repeat is known from the crystal structure of beta-catenin, where the 12 repeats form a superhelix of alpha helices with three helices per unit []. The cylindrical structure features a positively charged grove, which presumably interacts with the acidic surfaces of the known interaction partners of beta-catenin.; GO: 0005515 protein binding; PDB: 2Z6G_A 1IQ1_C 3RZX_A 2C1M_A 3BTR_C 3OQS_A 3TPO_A 1IAL_A 1Q1S_C 1PJM_B ....
Probab=36.16 E-value=20 Score=22.19 Aligned_cols=21 Identities=24% Similarity=0.567 Sum_probs=17.1
Q ss_pred HHHHHHHHhcCcchhhhhhhh
Q 029092 112 DIEKLILQSGGVKSLIGCLHG 132 (199)
Q Consensus 112 ~vE~lVrQsGGVKsLIg~LH~ 132 (199)
+--..|.++||+..||..|+.
T Consensus 3 ~~~~~i~~~g~i~~Lv~ll~~ 23 (41)
T PF00514_consen 3 ENKQAIVEAGGIPPLVQLLKS 23 (41)
T ss_dssp HHHHHHHHTTHHHHHHHHTTS
T ss_pred HHHHHHHHcccHHHHHHHHcC
Confidence 345678899999999999873
No 10
>PLN02751 glutamyl-tRNA(Gln) amidotransferase
Probab=35.62 E-value=43 Score=33.11 Aligned_cols=35 Identities=31% Similarity=0.254 Sum_probs=26.0
Q ss_pred CCCCCCCCCCCC--ChHHHHHHHhccCCCChHHHHHHh
Q 029092 158 SSSRPVPDGLPK--TLEELEEEERARMPDSPYTRLLRA 193 (199)
Q Consensus 158 erpfp~PDgLPK--t~eELeEEE~a~MPeS~~TRLLR~ 193 (199)
-|+||+||=.|= |++. =++=++.|||.|..|.-|-
T Consensus 337 YRyfPEPDLppi~i~~e~-i~~ir~~lPElP~~~~~Rl 373 (544)
T PLN02751 337 YRYFPEPDLPEVVLTEEY-VDSIRASMPELPEAKRRRY 373 (544)
T ss_pred cCcCCCCCCCceecCHHH-HHHHHHhCCCCHHHHHHHH
Confidence 468999997663 5444 4566788999999887764
No 11
>PRK04028 glutamyl-tRNA(Gln) amidotransferase subunit E; Validated
Probab=35.34 E-value=43 Score=33.63 Aligned_cols=36 Identities=25% Similarity=0.263 Sum_probs=27.1
Q ss_pred CCCCCCCCCCCC--ChHHHHHHHhccCCCChHHHHHHhh
Q 029092 158 SSSRPVPDGLPK--TLEELEEEERARMPDSPYTRLLRAK 194 (199)
Q Consensus 158 erpfp~PDgLPK--t~eELeEEE~a~MPeS~~TRLLR~~ 194 (199)
.|.||+||=.|= |++. -|+-++.|||.|..|+-|-+
T Consensus 426 ~Ry~PepDlppi~i~~~~-i~~i~~~~Pe~p~~~~~r~~ 463 (630)
T PRK04028 426 ARMYPETDIPPIRITEEL-LEKIKKNLPELPEEKVERLI 463 (630)
T ss_pred cccCCCCCcCceecCHHH-HHHHHHhCCCCHHHHHHHHH
Confidence 489999998886 4444 46777899999987665543
No 12
>TIGR00134 gatE_arch glutamyl-tRNA(Gln) amidotransferase, subunit E. The Archaea have an Asp-tRNA(Asn) amidotransferase instead of an Asp--tRNA ligase, but the genes have not been identified. It is likely that this protein replaces gatB in Asp-tRNA(Asn) amidotransferase but that both enzymes share gatA.
Probab=29.27 E-value=56 Score=32.78 Aligned_cols=37 Identities=27% Similarity=0.279 Sum_probs=26.9
Q ss_pred CCCCCCCCCCCCC-hHHHHHHHhccCCCChHHHHHHhh
Q 029092 158 SSSRPVPDGLPKT-LEELEEEERARMPDSPYTRLLRAK 194 (199)
Q Consensus 158 erpfp~PDgLPKt-~eELeEEE~a~MPeS~~TRLLR~~ 194 (199)
-|.||+||=.|=. .++.-++-++.|||.|..|.=|-+
T Consensus 419 yRy~PEpDlppi~i~~~~i~~i~~~lPelp~~~~~r~~ 456 (620)
T TIGR00134 419 ARMYPETDIPPFRIEDELLEGIRRNLPELPEEKKERIM 456 (620)
T ss_pred cCCCCCCCcCceecCHHHHHHHHHhCCCCHHHHHHHHH
Confidence 4889999988873 234446667889999987665544
No 13
>PF03960 ArsC: ArsC family; InterPro: IPR006660 Several bacterial taxon have a chromosomal resistance system, encoded by the ars operon, for the detoxification of arsenate, arsenite, and antimonite []. This system transports arsenite and antimonite out of the cell. The pump is composed of two polypeptides, the products of the arsA and arsB genes. This two-subunit enzyme produces resistance to arsenite and antimonite. Arsenate, however, must first be reduced to arsenite before it is extruded. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ArsC is an approximately 150-residue arsenate reductase that uses reduced glutathione (GSH) to convert arsenate to arsenite with a redox active cysteine residue in the active site. ArsC forms an active quaternary complex with GSH, arsenate, and glutaredoxin 1 (Grx1). The three ligands must be present simultaneously for reduction to occur []. The arsC family also comprises the Spx proteins which are GRAM-positive bacterial transcription factors that regulate the transcription of multiple genes in response to disulphide stress []. The arsC protein structure has been solved []. It belongs to the thioredoxin superfamily fold which is defined by a beta-sheet core surrounded by alpha-helices. The active cysteine residue of ArsC is located in the loop between the first beta-strand and the first helix, which is also conserved in the Spx protein and its homologues.; PDB: 2KOK_A 1SK1_A 1SK2_A 1JZW_A 1J9B_A 1S3C_A 1SD8_A 1SD9_A 1I9D_A 1SK0_A ....
Probab=27.71 E-value=26 Score=26.06 Aligned_cols=30 Identities=37% Similarity=0.649 Sum_probs=20.9
Q ss_pred hhHHhhhh-CcHHHHHHHHHHhc-Ccchhhhh
Q 029092 100 ELKDLEKE-LPKEDIEKLILQSG-GVKSLIGC 129 (199)
Q Consensus 100 E~~dlekE-~Pke~vE~lVrQsG-GVKsLIg~ 129 (199)
++-|+.++ ...+++..++.+.| |+..||.-
T Consensus 24 ~~~d~~k~p~s~~el~~~l~~~~~~~~~lin~ 55 (110)
T PF03960_consen 24 EFIDYKKEPLSREELRELLSKLGNGPDDLINT 55 (110)
T ss_dssp EEEETTTS---HHHHHHHHHHHTSSGGGGB-T
T ss_pred EeehhhhCCCCHHHHHHHHHHhcccHHHHhcC
Confidence 34444443 68999999999997 79999965
No 14
>smart00185 ARM Armadillo/beta-catenin-like repeats. Approx. 40 amino acid repeat. Tandem repeats form superhelix of helices that is proposed to mediate interaction of beta-catenin with its ligands. Involved in transducing the Wingless/Wnt signal. In plakoglobin arm repeats bind alpha-catenin and N-cadherin.
Probab=27.16 E-value=41 Score=19.69 Aligned_cols=19 Identities=21% Similarity=0.552 Sum_probs=16.0
Q ss_pred HHHHHHHhcCcchhhhhhh
Q 029092 113 IEKLILQSGGVKSLIGCLH 131 (199)
Q Consensus 113 vE~lVrQsGGVKsLIg~LH 131 (199)
-...|.+.||+..|+..|+
T Consensus 4 ~~~~i~~~g~i~~L~~ll~ 22 (41)
T smart00185 4 QKQAVVDAGGLPALVELLK 22 (41)
T ss_pred HHHHHHHCCCHHHHHHHHc
Confidence 4567889999999999876
No 15
>PF08109 Antimicrobial14: Lactocin 705 family; InterPro: IPR012517 This family consists of lactocin 705 which is a bacteriocin produced by Lactobacillus casei CRL 705. Lactocin 705 is a class IIb bacteriocin, whose activity depends upon the complementation of two peptides (705-alpha and 705-beta) of 33 amino acid residues each. Lactocin 705 is active against several Gram-positive bacteria, including food-borne pathogens and is a good candidate to be used for biopreservation of fermented meats [].
Probab=26.52 E-value=26 Score=22.66 Aligned_cols=19 Identities=47% Similarity=0.613 Sum_probs=15.6
Q ss_pred chhhhhhhhhhhhhhhhhc
Q 029092 124 KSLIGCLHGISSIRKAKTD 142 (199)
Q Consensus 124 KsLIg~LH~ia~m~K~kk~ 142 (199)
.-|-|-||||+..+|-||.
T Consensus 11 dflkgylhgisaankhkkg 29 (31)
T PF08109_consen 11 DFLKGYLHGISAANKHKKG 29 (31)
T ss_pred HHHHHHHhhhhhhcccccc
Confidence 4677899999999987764
No 16
>KOG1539 consensus WD repeat protein [General function prediction only]
Probab=25.76 E-value=87 Score=33.12 Aligned_cols=86 Identities=24% Similarity=0.250 Sum_probs=53.1
Q ss_pred hHHhhhhCcHHHHHHHHHHhcCcchhhhhhhhhhhhhhhhhcCCCCcccccccccccCCCCCCC-----CCCCCC--hHH
Q 029092 101 LKDLEKELPKEDIEKLILQSGGVKSLIGCLHGISSIRKAKTDGFASEEKTLGSKRIESSSRPVP-----DGLPKT--LEE 173 (199)
Q Consensus 101 ~~dlekE~Pke~vE~lVrQsGGVKsLIg~LH~ia~m~K~kk~~~~s~~~~~~~~~~~erpfp~P-----DgLPKt--~eE 173 (199)
.+||+=+.|.+.-|+||-=||+++|=-.+|-+...+.|..|-+-. | ...+.-||=.| +-.|.+ ++|
T Consensus 690 ~e~i~y~~~eQldeeLvTlS~lp~Srwq~Ll~LelIk~RnkPke~---P----K~pkkaPFFLp~~~s~g~v~e~~~~~~ 762 (910)
T KOG1539|consen 690 DEDIKYSSPEQLDEELVTLSKLPRSRWQNLLNLELIKKRNKPKEP---P----KKPKKAPFFLPKVPSEGLVLETPAAEE 762 (910)
T ss_pred ccccccCChhHhChhhhhhccCcHHHhhhcccHHHHHhcCCCCCC---C----CccccCCcccccCCcccccccCcchhh
Confidence 466766788888999999999999988887777777655443322 1 23344465444 222332 222
Q ss_pred -HHHHHhccC-------CCChHHHHHHh
Q 029092 174 -LEEEERARM-------PDSPYTRLLRA 193 (199)
Q Consensus 174 -LeEEE~a~M-------PeS~~TRLLR~ 193 (199)
-.++.+..| =||+||.+||.
T Consensus 763 ~~~~~~~~~ik~~~~L~~es~F~~~Lre 790 (910)
T KOG1539|consen 763 LNKEEDENKIKKLGLLELESSFTTLLRE 790 (910)
T ss_pred hcchhhhhhhhccccccccchHHHHHhh
Confidence 223333333 36999999993
No 17
>PF13592 HTH_33: Winged helix-turn helix
Probab=24.76 E-value=51 Score=22.50 Aligned_cols=26 Identities=31% Similarity=0.217 Sum_probs=19.9
Q ss_pred HHHHHHhccCCCChHHHHHHhhCCCC
Q 029092 173 ELEEEERARMPDSPYTRLLRAKGRLP 198 (199)
Q Consensus 173 ELeEEE~a~MPeS~~TRLLR~~gr~P 198 (199)
-++++---.+-.+.+.|||+++|..+
T Consensus 13 ~I~~~fgv~ys~~~v~~lL~r~G~s~ 38 (60)
T PF13592_consen 13 YIEEEFGVKYSPSGVYRLLKRLGFSY 38 (60)
T ss_pred HHHHHHCCEEcHHHHHHHHHHcCCcc
Confidence 34555566677889999999999864
No 18
>PF12174 RST: RCD1-SRO-TAF4 (RST) plant domain; InterPro: IPR022003 This domain is found in many plant proteins including SROs and RCD1s; it is required for interaction with multiple plant transcription factors.
Probab=23.76 E-value=73 Score=23.35 Aligned_cols=33 Identities=21% Similarity=0.374 Sum_probs=25.5
Q ss_pred HHHH-hhHHhhhhCcHHHHHHHHHHhcCcchhhhhh
Q 029092 96 RAYF-ELKDLEKELPKEDIEKLILQSGGVKSLIGCL 130 (199)
Q Consensus 96 ~AyF-E~~dlekE~Pke~vE~lVrQsGGVKsLIg~L 130 (199)
..+| +|+ +++.+++++-+.+|+..|.+-|+..|
T Consensus 31 ~~~Y~~~k--~~kIsR~~fvr~lR~IVGD~lL~s~I 64 (70)
T PF12174_consen 31 QKHYEEFK--KKKISREEFVRKLRQIVGDQLLRSAI 64 (70)
T ss_pred HHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 3444 565 34599999999999998888887764
No 19
>cd03034 ArsC_ArsC Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the detoxification of arsenic, using reducing equivalents derived from glutathione (GSH) via glutaredoxin (GRX). ArsC contains a single catalytic cysteine, within a thioredoxin fold, that forms a covalent thiolate-As(V) intermediate, which is reduced by GRX through a mixed GSH-arsenate intermediate. This family of predominantly bacterial enzymes is unrelated to two other families of arsenate reductases which show similarity to low-molecular-weight acid phosphatases and phosphotyrosyl phosphatases.
Probab=22.74 E-value=35 Score=25.82 Aligned_cols=31 Identities=16% Similarity=0.293 Sum_probs=24.3
Q ss_pred HhhHHhhhh-CcHHHHHHHHHHhc-Ccchhhhh
Q 029092 99 FELKDLEKE-LPKEDIEKLILQSG-GVKSLIGC 129 (199)
Q Consensus 99 FE~~dlekE-~Pke~vE~lVrQsG-GVKsLIg~ 129 (199)
|++.|+.++ ..++++..++.++| |+..||.-
T Consensus 26 ~~~~di~~~~~t~~el~~~l~~~~~~~~~lin~ 58 (112)
T cd03034 26 PEIVEYLKTPPTAAELRELLAKLGISPRDLLRT 58 (112)
T ss_pred eEEEecccCCcCHHHHHHHHHHcCCCHHHHHhc
Confidence 556666554 57999999999997 68888865
No 20
>PF00533 BRCT: BRCA1 C Terminus (BRCT) domain; InterPro: IPR001357 The BRCT domain (after the C_terminal domain of a breast cancer susceptibility protein) is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage [], for example as found in the breast cancer DNA-repair protein BRCA1. The domain is an approximately 100 amino acid tandem repeat, which appears to act as a phospho-protein binding domain []. A chitin biosynthesis protein from yeast also seems to belong to this group. ; GO: 0005622 intracellular; PDB: 3L46_A 3AL3_A 3AL2_A 1WF6_A 3II6_X 2NTE_B 3FA2_A 2R1Z_A 2COK_A 2K7F_A ....
Probab=21.90 E-value=59 Score=21.31 Aligned_cols=18 Identities=33% Similarity=0.580 Sum_probs=15.0
Q ss_pred hCcHHHHHHHHHHhcCcc
Q 029092 107 ELPKEDIEKLILQSGGVK 124 (199)
Q Consensus 107 E~Pke~vE~lVrQsGGVK 124 (199)
...+++++++|++.||.-
T Consensus 18 ~~~~~~l~~~i~~~GG~v 35 (78)
T PF00533_consen 18 SDEREELEQLIKKHGGTV 35 (78)
T ss_dssp SSHHHHHHHHHHHTTEEE
T ss_pred CCCHHHHHHHHHHcCCEE
Confidence 356889999999999864
No 21
>KOG0358 consensus Chaperonin complex component, TCP-1 delta subunit (CCT4) [Posttranslational modification, protein turnover, chaperones]
Probab=21.63 E-value=53 Score=32.43 Aligned_cols=23 Identities=43% Similarity=0.949 Sum_probs=19.1
Q ss_pred hHHhhhhcccCCCcchhHHHHHHh
Q 029092 77 NDLADYCSTLEGDDSYSCWRAYFE 100 (199)
Q Consensus 77 ~~l~DyCstLeGDes~sCW~AyFE 100 (199)
-+|..+--++||-+.| ||+||-+
T Consensus 429 ~~L~~~a~t~eG~~~y-c~rafA~ 451 (534)
T KOG0358|consen 429 LRLSALARTLEGVEAY-CWRAFAD 451 (534)
T ss_pred HHHHHHHhhhccchhH-HHHHHHH
Confidence 4577888899999998 9999754
No 22
>PF04192 Utp21: Utp21 specific WD40 associated putative domain ; InterPro: IPR007319 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. Utp21 is a component of the SSU processome, which is required for pre-18S rRNA processing. It interacts with Utp18 [].; GO: 0006364 rRNA processing, 0032040 small-subunit processome
Probab=21.42 E-value=1.2e+02 Score=26.44 Aligned_cols=37 Identities=27% Similarity=0.213 Sum_probs=29.4
Q ss_pred CcHHHH-HHHHHHhcCcchhhhhhhhhhhhhhhhhcCC
Q 029092 108 LPKEDI-EKLILQSGGVKSLIGCLHGISSIRKAKTDGF 144 (199)
Q Consensus 108 ~Pke~v-E~lVrQsGGVKsLIg~LH~ia~m~K~kk~~~ 144 (199)
...++| ++||-=||..++=..+|.++-.+++..|-+.
T Consensus 20 ~s~~Qi~~~LiTLS~lP~srWq~Ll~LD~IK~RNKPke 57 (237)
T PF04192_consen 20 SSPEQIDEDLITLSGLPRSRWQNLLNLDVIKERNKPKE 57 (237)
T ss_pred CChhhhCccceeeccCCHHHHHHHHHHHHHHHhCCCCC
Confidence 456777 5899999999999999998888877665543
No 23
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=20.46 E-value=86 Score=19.15 Aligned_cols=15 Identities=27% Similarity=0.618 Sum_probs=13.7
Q ss_pred CcHHHHHHHHHHhcC
Q 029092 108 LPKEDIEKLILQSGG 122 (199)
Q Consensus 108 ~Pke~vE~lVrQsGG 122 (199)
..+++++++|.+.||
T Consensus 13 ~~~~~l~~~i~~~Gg 27 (72)
T cd00027 13 EERDELKELIEKLGG 27 (72)
T ss_pred cCHHHHHHHHHHcCC
Confidence 578999999999999
Done!