Query 017292
Match_columns 374
No_of_seqs 116 out of 132
Neff 3.3
Searched_HMMs 46136
Date Fri Mar 29 07:17:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017292.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017292hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00684 DM15 Tandem repeat 99.7 3.4E-18 7.3E-23 122.2 3.8 39 257-295 1-39 (39)
2 smart00684 DM15 Tandem repeat 99.5 4.7E-15 1E-19 106.1 3.1 38 216-256 2-39 (39)
3 KOG2590 RNA-binding protein LA 93.3 0.076 1.7E-06 55.4 3.6 56 14-71 350-408 (448)
4 PRK15183 Vi polysaccharide bio 20.6 55 0.0012 29.4 1.4 17 12-28 16-32 (143)
5 COG5041 SKB2 Casein kinase II, 20.0 39 0.00084 33.2 0.3 92 245-357 21-119 (242)
6 PF01023 S_100: S-100/ICaBP ty 18.7 1.3E+02 0.0027 22.1 2.7 32 325-357 10-41 (44)
7 COG1198 PriA Primosomal protei 17.0 95 0.0021 34.9 2.4 35 202-238 599-633 (730)
8 PF04504 DUF573: Protein of un 16.8 3.1E+02 0.0066 23.1 4.9 46 224-269 15-61 (98)
9 PF04718 ATP-synt_G: Mitochond 14.9 2.5E+02 0.0053 24.0 3.9 56 235-290 30-89 (103)
10 PHA02099 hypothetical protein 14.4 42 0.00092 27.9 -0.8 41 229-270 22-65 (84)
No 1
>smart00684 DM15 Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function.
Probab=99.72 E-value=3.4e-18 Score=122.20 Aligned_cols=39 Identities=46% Similarity=0.937 Sum_probs=37.7
Q ss_pred hcCHHHHHHHHHHHHHHHhhhhhhhhhHHHHHhhhhhhh
Q 017292 257 MFIPSMYNEFQKFALEDAAASYNYGIECLFRFYSYGLEK 295 (374)
Q Consensus 257 nFN~~MY~EFR~lALEDa~~g~~yGLEcLfRFYsygLe~ 295 (374)
|||++||+|||++||||++++.+|||+||||||||+|++
T Consensus 1 ~Fn~~~Y~eFr~laled~~~~~~~gm~~LfRFwsy~L~~ 39 (39)
T smart00684 1 NFNQNMYEEFRQLCLEDRKSLGRYELNCLYRFWSYGLRK 39 (39)
T ss_pred CchhhHHHHHHHHHHHHHHHcCChhHHHHHHHHHhhccC
Confidence 799999999999999999998899999999999999985
No 2
>smart00684 DM15 Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function.
Probab=99.53 E-value=4.7e-15 Score=106.12 Aligned_cols=38 Identities=58% Similarity=1.081 Sum_probs=36.3
Q ss_pred CchhhhHHHHHHHHHHHhhcCCCCcccchhhhHHHhHHHHh
Q 017292 216 FRQQKYLKFRKRCLNERKKLGIGCSEEMNTLYRFWSYFLRE 256 (374)
Q Consensus 216 F~qq~Y~kfr~~cL~qRk~~g~G~s~eMntLyRFWS~FLr~ 256 (374)
|++++|++||+.||+||++.| +++|++|||||||||++
T Consensus 2 Fn~~~Y~eFr~laled~~~~~---~~gm~~LfRFwsy~L~~ 39 (39)
T smart00684 2 FNQNMYEEFRQLCLEDRKSLG---RYELNCLYRFWSYGLRK 39 (39)
T ss_pred chhhHHHHHHHHHHHHHHHcC---ChhHHHHHHHHHhhccC
Confidence 999999999999999999877 89999999999999985
No 3
>KOG2590 consensus RNA-binding protein LARP/SRO9 and related La domain proteins [Posttranslational modification, protein turnover, chaperones; Translation, ribosomal structure and biogenesis]
Probab=93.28 E-value=0.076 Score=55.41 Aligned_cols=56 Identities=18% Similarity=0.129 Sum_probs=47.0
Q ss_pred cccccceEEEecCCCC--CCCCCCCC-cccccccHHHHHHHhhhhhhhHHhhhhccCCccc
Q 017292 14 VCFLGNVLNDLQNSWA--VEGSKTGG-KGLKSISNELASAINDGLYFFEQELKTKRSSRRK 71 (374)
Q Consensus 14 ~~~i~KllIVTQ~~~~--~kgdrtg~-~~~~kis~eLas~INDGLy~YEqdL~~k~~~~~~ 71 (374)
+.|+++++||+|++.. +.+|++|. ..+++++.+|+.+|+|+ +|+|++|........
T Consensus 350 ~~alr~s~ive~~~d~~~r~~~~~g~~~~ra~~~s~l~~~~~~~--~~~q~~~~e~~e~es 408 (448)
T KOG2590|consen 350 LAALRNSLIVEETGDLERRGGDRWGNHVSRAKESSPLDKAVDRR--DYWQDLLMEQNEDES 408 (448)
T ss_pred HHHHhhhhhhhccchhhhcccccccceecccccCCcchhhhhhh--HHHHHHhhhcccccc
Confidence 4578999999999663 45888888 67899999999999999 899999998766443
No 4
>PRK15183 Vi polysaccharide biosynthesis protein TviA; Provisional
Probab=20.59 E-value=55 Score=29.38 Aligned_cols=17 Identities=12% Similarity=0.233 Sum_probs=14.1
Q ss_pred cccccccceEEEecCCC
Q 017292 12 SRVCFLGNVLNDLQNSW 28 (374)
Q Consensus 12 ~~~~~i~KllIVTQ~~~ 28 (374)
+|..|||||||+--+++
T Consensus 16 sr~~dinkiiiiisssr 32 (143)
T PRK15183 16 TRMSDINKIIVIISSSR 32 (143)
T ss_pred hhccccceEEEEEeccc
Confidence 68899999999887654
No 5
>COG5041 SKB2 Casein kinase II, beta subunit [Signal transduction mechanisms / Cell division and chromosome partitioning / Transcription]
Probab=19.98 E-value=39 Score=33.16 Aligned_cols=92 Identities=23% Similarity=0.342 Sum_probs=56.1
Q ss_pred hhhHHH-hHHHHhh---cCHHHHHHHHHHHHHHHhhhhhhhhhHHHHHhhhhhh---hhchHHHHHHHHHHHHhhhccCc
Q 017292 245 TLYRFW-SYFLREM---FIPSMYNEFQKFALEDAAASYNYGIECLFRFYSYGLE---KECREDLYKDFEQLTLDFYHKGN 317 (374)
Q Consensus 245 tLyRFW-S~FLr~n---FN~~MY~EFR~lALEDa~~g~~yGLEcLfRFYsygLe---~~fr~~ly~DF~~ltl~d~~~g~ 317 (374)
..|--| ..|+... |--.+=+|| +||.. ...||..-.-+|++.|. ++-.++..+.++-..++ -..-+
T Consensus 21 ~~y~~Wi~~F~~rkg~eyfc~V~~ef----IeDrF--NltgL~~~Vp~y~~~ldlILD~~~~~~~e~~~~d~iE-~sa~~ 93 (242)
T COG5041 21 SEYDEWIDWFCSRKGNEYFCEVPEEF----IEDRF--NLTGLSREVPHYSEVLDLILDKLAPSNLENDEVDIIE-ESARQ 93 (242)
T ss_pred HHHHHHHHHHHcCCCCeeeeeCCHHH----HHhhh--hccchhhccchHHHHHHHHHhccCCcchhhhhhHHHH-HHHHH
Confidence 456667 4555542 333455555 44533 34688888889998886 46666777777633332 22347
Q ss_pred ccchhhHHHHHHhhcCCCCCCCCCCchHHHHHHHhhcCCc
Q 017292 318 LYGLEKYWAFHHYRGLRDQKNPLKKHPELERLLREEYRSI 357 (374)
Q Consensus 318 lYGLEK~wAFlkY~k~~~~~~~l~~~p~L~~~L~e~~ktl 357 (374)
||||=- + +=|-..+-|+++| |||+.-
T Consensus 94 LYgLIH---------a----RyIiT~~GL~~m~-eKy~~~ 119 (242)
T COG5041 94 LYGLIH---------A----RYIITKSGLQAML-EKYKSR 119 (242)
T ss_pred HHHHHH---------h----hheeeHHHHHHHH-HHHhhc
Confidence 999854 1 1244457899999 499864
No 6
>PF01023 S_100: S-100/ICaBP type calcium binding domain; InterPro: IPR013787 The calcium-binding domain found in S100 and CaBP-9k proteins is a subfamily of the EF-hand calcium-binding domain []. S100s are small dimeric acidic calcium and zinc-binding proteins abundant in the brain, with S100B playing an important role in modulating the proliferation and differentiation of neurons and glia cells []. S100 proteins have two different types of calcium-binding sites: a low affinity one with a special structure, and a 'normal' EF-hand type high-affinity site. Calbindin-D9k (CaBP-9k) also belong to this family of proteins, but it does not form dimers. CaBP-9k is a cytosolic protein expressed in a variety of tissues. Although its precise function is unknown, it appears to be under the control of the steroid hormones oestrogen and progesterone in the female reproductive system []. In the intestine, CaBP-9k may be involved in calcium absorption by mediating intracellular diffusion []. This entry represents a subdomain of the calcium-binding domain found in S100, CaBP-9k, and related proteins.; PDB: 2RGI_A 4DUQ_B 2KAY_B 2KAX_A 2CNP_A 1CNP_A 1A03_A 1JWD_B 2JTT_A 1XK4_B ....
Probab=18.67 E-value=1.3e+02 Score=22.07 Aligned_cols=32 Identities=34% Similarity=0.569 Sum_probs=21.3
Q ss_pred HHHHHhhcCCCCCCCCCCchHHHHHHHhhcCCc
Q 017292 325 WAFHHYRGLRDQKNPLKKHPELERLLREEYRSI 357 (374)
Q Consensus 325 wAFlkY~k~~~~~~~l~~~p~L~~~L~e~~ktl 357 (374)
-.|++|.........| ...||+++|..++..+
T Consensus 10 ~vFhkYa~~~Gd~~~L-sk~Elk~Ll~~Elp~f 41 (44)
T PF01023_consen 10 DVFHKYAGKEGDKDTL-SKKELKELLEKELPNF 41 (44)
T ss_dssp HHHHHHHTSSSSTTSE-EHHHHHHHHHHHSTTT
T ss_pred HHHHHHhccCCCCCeE-cHHHHHHHHHHHHHHH
Confidence 3699998552222333 5689999998777653
No 7
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=16.98 E-value=95 Score=34.92 Aligned_cols=35 Identities=29% Similarity=0.550 Sum_probs=29.4
Q ss_pred CCCCChHHhhhhcCCchhhhHHHHHHHHHHHhhcCCC
Q 017292 202 PFQHPSHQLLEENGFRQQKYLKFRKRCLNERKKLGIG 238 (374)
Q Consensus 202 ~f~HpSh~lL~engF~qq~Y~kfr~~cL~qRk~~g~G 238 (374)
+-.+|+|+.++. -..+.|..|-++.|++|+.+++-
T Consensus 599 QT~~P~hp~i~~--~~~~dy~~F~~~El~~Rk~~~~P 633 (730)
T COG1198 599 QTYNPDHPAIQA--LKRGDYEAFYEQELAERKELGLP 633 (730)
T ss_pred EeCCCCcHHHHH--HHhcCHHHHHHHHHHHHHhcCCC
Confidence 346899999988 47779999999999999977764
No 8
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=16.84 E-value=3.1e+02 Score=23.07 Aligned_cols=46 Identities=20% Similarity=0.300 Sum_probs=35.9
Q ss_pred HHHHHHHHHhhcCCCCcccchhhhHHHhHHHHhhcCH-HHHHHHHHH
Q 017292 224 FRKRCLNERKKLGIGCSEEMNTLYRFWSYFLREMFIP-SMYNEFQKF 269 (374)
Q Consensus 224 fr~~cL~qRk~~g~G~s~eMntLyRFWS~FLr~nFN~-~MY~EFR~l 269 (374)
+.+..++-|.+.|.+-..+|+.||.+=.-.|..+||. .+|++.|+|
T Consensus 15 iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrL 61 (98)
T PF04504_consen 15 ILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRL 61 (98)
T ss_pred HHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHH
Confidence 4455677788888877779999999988888878874 677777776
No 9
>PF04718 ATP-synt_G: Mitochondrial ATP synthase g subunit; InterPro: IPR006808 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents the G subunit found in the F0 complex of F-ATPases in mitochondria. The function of subunit G is currently unknown. There is no counterpart in chloroplast or bacterial F-ATPases identified so far []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)
Probab=14.89 E-value=2.5e+02 Score=23.99 Aligned_cols=56 Identities=16% Similarity=0.198 Sum_probs=42.4
Q ss_pred cCCCCcccchhhhHHHhHHHH----hhcCHHHHHHHHHHHHHHHhhhhhhhhhHHHHHhh
Q 017292 235 LGIGCSEEMNTLYRFWSYFLR----EMFIPSMYNEFQKFALEDAAASYNYGIECLFRFYS 290 (374)
Q Consensus 235 ~g~G~s~eMntLyRFWS~FLr----~nFN~~MY~EFR~lALEDa~~g~~yGLEcLfRFYs 290 (374)
+.+-...+++.+|+=+..... -..-.....-++.+..+|+....-+|+||+.=|+-
T Consensus 30 l~PPt~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~e~~~~~l~~~Ev~~wF~v 89 (103)
T PF04718_consen 30 LAPPTPAEFQSVYQQLFKTVKSAKSGSSPKSKLKQWKNLTVKEAAKNGLVGAEVYGWFFV 89 (103)
T ss_pred cCCcCHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHhh
Confidence 556677788888876655544 13446677789999999999999999999987763
No 10
>PHA02099 hypothetical protein
Probab=14.40 E-value=42 Score=27.95 Aligned_cols=41 Identities=32% Similarity=0.541 Sum_probs=31.1
Q ss_pred HHHHhhcCCCCcccchhhhHHHh---HHHHhhcCHHHHHHHHHHH
Q 017292 229 LNERKKLGIGCSEEMNTLYRFWS---YFLREMFIPSMYNEFQKFA 270 (374)
Q Consensus 229 L~qRk~~g~G~s~eMntLyRFWS---~FLr~nFN~~MY~EFR~lA 270 (374)
|+.-.+.|+|.+ ||..|=-|=- -|--+.+|+.+|+|-++.|
T Consensus 22 lkn~~rv~pg~~-emhilr~~~g~diifha~gy~p~ly~e~~r~~ 65 (84)
T PHA02099 22 LKNAGRVGPGES-EMHILRNFEGVDIVFHAEGYNPDLYAELKRHV 65 (84)
T ss_pred hhccCccCCCCc-EEEEEeecCCccEEEEcCCCCHHHHHHHHHhh
Confidence 444556888877 8988876653 2567889999999988876
Done!