Query 028862
Match_columns 202
No_of_seqs 17 out of 19
Neff 2.3
Searched_HMMs 46136
Date Fri Mar 29 03:43:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028862.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028862hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06633 DUF1155: Protein of u 48.5 7.9 0.00017 26.8 0.6 18 17-34 6-23 (42)
2 PF10071 DUF2310: Zn-ribbon-co 27.1 48 0.001 29.9 2.3 32 24-63 130-161 (258)
3 PF03835 Rad4: Rad4 transgluta 18.3 35 0.00076 26.7 -0.3 83 19-111 49-144 (145)
4 PF13630 SdpI: SdpI/YhfL prote 17.7 77 0.0017 21.6 1.3 17 46-62 16-32 (76)
5 PF13723 Ketoacyl-synt_2: Beta 15.3 1.7E+02 0.0036 25.4 3.0 35 14-48 132-166 (218)
6 PF11001 DUF2841: Protein of u 14.8 65 0.0014 26.2 0.4 26 77-102 45-71 (126)
7 KOG2262 Sexual differentiation 14.7 73 0.0016 33.0 0.8 24 23-48 50-74 (761)
8 PF10347 Fmp27_GFWDK: RNA pol 13.6 1.3E+02 0.0028 24.9 1.9 23 23-46 1-29 (154)
9 PF14766 RPA_interact_N: Repli 12.0 1.6E+02 0.0034 19.7 1.6 20 81-109 6-26 (42)
10 PF15411 PH_10: Pleckstrin hom 11.8 2.6E+02 0.0055 22.0 2.9 24 35-59 91-114 (116)
No 1
>PF06633 DUF1155: Protein of unknown function (DUF1155); InterPro: IPR009536 This family consists of several Cucumber mosaic virus ORF IIB proteins. The function of this family is unknown.
Probab=48.48 E-value=7.9 Score=26.76 Aligned_cols=18 Identities=39% Similarity=0.713 Sum_probs=16.0
Q ss_pred ceeeeccCCCcccccCCC
Q 028862 17 STVIKFDKPIPLLRGPVP 34 (202)
Q Consensus 17 at~i~FD~plPLlR~PvP 34 (202)
.|+..|+|||-||--|-|
T Consensus 6 st~~sfepplslla~pg~ 23 (42)
T PF06633_consen 6 STTLSFEPPLSLLAEPGT 23 (42)
T ss_pred cceeccCCchHHHcCCCc
Confidence 578999999999998876
No 2
>PF10071 DUF2310: Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); InterPro: IPR016908 This group represents uncharacterised conserved proteins.
Probab=27.10 E-value=48 Score=29.95 Aligned_cols=32 Identities=25% Similarity=0.727 Sum_probs=22.0
Q ss_pred CCCcccccCCCCCCCCCCCceeeecChhhHHHHHHHHhHh
Q 028862 24 KPIPLLRGPVPHDDPSSGSYLLAFRSHQSWASAYESCESK 63 (202)
Q Consensus 24 ~plPLlR~PvP~ddpS~gp~vLAFrd~~SW~~a~~~cE~~ 63 (202)
.||||.|.|-..+.. +.+-=+|...|++|-.-
T Consensus 130 ~pIPLY~lp~~~~~~--------~~~iikWQ~~wqAcD~L 161 (258)
T PF10071_consen 130 QPIPLYRLPKTANGD--------YKAIIKWQEDWQACDQL 161 (258)
T ss_pred CcccCeecCCCCCcc--------hHHHHHHHHHHHHHHHH
Confidence 378999988332221 34566999999999753
No 3
>PF03835 Rad4: Rad4 transglutaminase-like domain; InterPro: IPR018325 RAD4/Xp-C proteins contain an ancient transglutaminase fold that is also found in peptide-N-glycanases (PNGases), which remove glycans from glycoproteins during their degradation. The PNGases retain the catalytic triad that is typical of this fold and are predicted to have a reaction mechanism similar to that involved in transglutamination. In contrast, the RAD4/Xp-C proteins are predicted to be inactive and are likely to only possess the interaction function in DNA repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0005634 nucleus; PDB: 2QSG_A 2QSF_A 2QSH_A 1X3W_A 1X3Z_A 3ESW_A.
Probab=18.32 E-value=35 Score=26.71 Aligned_cols=83 Identities=20% Similarity=0.307 Sum_probs=37.6
Q ss_pred eeeccCCCc---ccccCCC--CCCCCCCCceeeecChh-----hHHHHHHHHhHhHHHHhhhcccccccccccccCCChh
Q 028862 19 VIKFDKPIP---LLRGPVP--HDDPSSGSYLLAFRSHQ-----SWASAYESCESKVLSQCEHGARIGCSVNASKKCKPPW 88 (202)
Q Consensus 19 ~i~FD~plP---LlR~PvP--~ddpS~gp~vLAFrd~~-----SW~~a~~~cE~~i~sQCEaGAr~GCSIsASrkCkpPW 88 (202)
-|..||..- ....+-| ......-.||+||-+.. +.|=+......+ ....|+. ...+...|
T Consensus 49 WI~VDp~~~~~~~~~~~ep~~~~~~~~~~YViA~d~~~~~kDVT~RY~~~~~~~~-----~~r~R~~-----~~~~~~~W 118 (145)
T PF03835_consen 49 WIHVDPVVGKIIKVSCDEPLEENANNPMSYVIAFDNDGYAKDVTRRYASNYWNSK-----TRRLRVD-----RSYEEEDW 118 (145)
T ss_dssp EEEEETTTS-EESTBTTSTCCCCCS--B-EEEEE-CTTEEEE-HHHH-T-TCCCC-----CGGGSGG-----GSHHHHHH
T ss_pred EEEeeeeccccccccccCchhhccCCceEEEEEEeCCCCEEEchHhhcccccccc-----cccccCC-----ccccHHHH
Confidence 344555443 2344444 33445578999993322 333332212111 1233443 55566889
Q ss_pred hhhhcCCCCC---ChhHHHHHHHHHH
Q 028862 89 WRNLIGQRPA---DFKEREDCEVREM 111 (202)
Q Consensus 89 Wk~l~g~~~~---d~~eRE~CEeREM 111 (202)
|+.++..... +..+|+.=|.+||
T Consensus 119 ~~~~l~~~~~~~~~~~~~d~~Ed~el 144 (145)
T PF03835_consen 119 WEKVLRPYNRPRRDRTIRDKKEDEEL 144 (145)
T ss_dssp HHHHHHHH--S---H--HHHHHHHHH
T ss_pred HHHHHHHHhcccccccchHHHHHhhc
Confidence 9999853222 2223566677776
No 4
>PF13630 SdpI: SdpI/YhfL protein family
Probab=17.70 E-value=77 Score=21.56 Aligned_cols=17 Identities=18% Similarity=0.425 Sum_probs=13.8
Q ss_pred eecChhhHHHHHHHHhH
Q 028862 46 AFRSHQSWASAYESCES 62 (202)
Q Consensus 46 AFrd~~SW~~a~~~cE~ 62 (202)
+.+|++.|+.|++.+-.
T Consensus 16 t~~s~~~W~~a~r~~g~ 32 (76)
T PF13630_consen 16 TMKSDENWKKAHRFAGK 32 (76)
T ss_pred HhCCHHHHHHHHHHHHH
Confidence 46789999999998753
No 5
>PF13723 Ketoacyl-synt_2: Beta-ketoacyl synthase, N-terminal domain
Probab=15.31 E-value=1.7e+02 Score=25.38 Aligned_cols=35 Identities=17% Similarity=0.293 Sum_probs=26.9
Q ss_pred CccceeeeccCCCcccccCCCCCCCCCCCceeeec
Q 028862 14 SAASTVIKFDKPIPLLRGPVPHDDPSSGSYLLAFR 48 (202)
Q Consensus 14 S~sat~i~FD~plPLlR~PvP~ddpS~gp~vLAFr 48 (202)
...+.||.||-|+|-.-.++..+..-..||.||+.
T Consensus 132 ~~~VLlv~~De~~p~~y~~~~~~~~~~~~~A~al~ 166 (218)
T PF13723_consen 132 AEPVLLVCYDEPLPEPYQEFRPERDPPFPYALALV 166 (218)
T ss_pred CCCEEEEEeCCCCChhhhhcccccCCCcCEEEEEE
Confidence 56789999999999888877654445567877764
No 6
>PF11001 DUF2841: Protein of unknown function (DUF2841); InterPro: IPR021264 This family of proteins with unknown function are all present in yeast.
Probab=14.78 E-value=65 Score=26.20 Aligned_cols=26 Identities=35% Similarity=0.868 Sum_probs=17.0
Q ss_pred cccccccCCChhhhhhc-CCCCCChhH
Q 028862 77 SVNASKKCKPPWWRNLI-GQRPADFKE 102 (202)
Q Consensus 77 SIsASrkCkpPWWk~l~-g~~~~d~~e 102 (202)
..+-.++.|||||=.-+ -.-|+-+.+
T Consensus 45 PY~~g~~tkP~WWP~~V~HkEPDHL~K 71 (126)
T PF11001_consen 45 PYNGGDKTKPPWWPEDVRHKEPDHLKK 71 (126)
T ss_pred CCCCCCCCCCCCCCCCCCcCCCCccCH
Confidence 44455689999997655 345555554
No 7
>KOG2262 consensus Sexual differentiation process protein ISP4 [Signal transduction mechanisms]
Probab=14.70 E-value=73 Score=33.00 Aligned_cols=24 Identities=50% Similarity=0.897 Sum_probs=20.2
Q ss_pred cCCCcccccCCC-CCCCCCCCceeeec
Q 028862 23 DKPIPLLRGPVP-HDDPSSGSYLLAFR 48 (202)
Q Consensus 23 D~plPLlR~PvP-~ddpS~gp~vLAFr 48 (202)
|.|+|=+|.-|| .|||+- ||+-||
T Consensus 50 ~spv~EVrl~Vp~tDDptl--Pv~TfR 74 (761)
T KOG2262|consen 50 DSPVPEVRLTVPPTDDPTL--PVLTFR 74 (761)
T ss_pred cCcchhheeecCCCCCCCc--hhHhHH
Confidence 489999999999 788875 688887
No 8
>PF10347 Fmp27_GFWDK: RNA pol II promoter Fmp27 protein domain; InterPro: IPR019441 This domain is found in fungi, metazoans and plants that contains a characteristic GFWDK sequence motif. These include FMP27 and maize protein APT1 and Arabidopsis homologues SABRE and KIP. The function of the FMP27 protein is not known. FMP27 is the product of a nuclear encoded gene but it is detected in highly purified mitochondria in high-throughput studies []. APT1 is required for pollen tube growth. It is a Golgi-localised protein and appears to regulate vesicular trafficking []. SABRE and KIP are APT1 homologues and they are involved in the elongation of root cortex cells and pollen tubes respectively.
Probab=13.64 E-value=1.3e+02 Score=24.94 Aligned_cols=23 Identities=52% Similarity=1.024 Sum_probs=15.0
Q ss_pred cCCCcccccCCCCCCCC------CCCceee
Q 028862 23 DKPIPLLRGPVPHDDPS------SGSYLLA 46 (202)
Q Consensus 23 D~plPLlR~PvP~ddpS------~gp~vLA 46 (202)
|-|||||-+| ++.+++ .|.+|+|
T Consensus 1 DYPlPll~ip-~~~~~~~~~~~~~G~lVia 29 (154)
T PF10347_consen 1 DYPLPLLHIP-PNQDPSSPSWSLKGDLVIA 29 (154)
T ss_pred CCCCCeEecc-cccCCCCccEEEEccEEEE
Confidence 6799999999 533333 2455665
No 9
>PF14766 RPA_interact_N: Replication protein A interacting N-terminal
Probab=12.02 E-value=1.6e+02 Score=19.75 Aligned_cols=20 Identities=40% Similarity=0.694 Sum_probs=12.8
Q ss_pred cccC-CChhhhhhcCCCCCChhHHHHHHHH
Q 028862 81 SKKC-KPPWWRNLIGQRPADFKEREDCEVR 109 (202)
Q Consensus 81 SrkC-kpPWWk~l~g~~~~d~~eRE~CEeR 109 (202)
+.|- ++|-||.-+ ||+|-+|
T Consensus 6 ~~k~~~~p~WKe~l---------R~rC~~R 26 (42)
T PF14766_consen 6 LYKQRKSPPWKETL---------RERCLER 26 (42)
T ss_pred hhccCCCccHHHHH---------HHHHHHH
Confidence 3444 667777654 7888766
No 10
>PF15411 PH_10: Pleckstrin homology domain
Probab=11.80 E-value=2.6e+02 Score=21.97 Aligned_cols=24 Identities=25% Similarity=0.547 Sum_probs=18.3
Q ss_pred CCCCCCCCceeeecChhhHHHHHHH
Q 028862 35 HDDPSSGSYLLAFRSHQSWASAYES 59 (202)
Q Consensus 35 ~ddpS~gp~vLAFrd~~SW~~a~~~ 59 (202)
.+|+..+-|+|-|||++.- ..|+.
T Consensus 91 ~~d~e~~~F~lrf~nee~l-~~W~~ 114 (116)
T PF15411_consen 91 KGDPELENFTLRFRNEEQL-EQWRS 114 (116)
T ss_pred cCCCCCceEEEEeCCHHHH-HHHHh
Confidence 4678899999999999873 34544
Done!