Query 023939
Match_columns 275
No_of_seqs 186 out of 307
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 07:44:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023939.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023939hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13178 DUF4005: Protein of u 99.5 4.3E-14 9.4E-19 114.1 6.2 57 202-259 34-90 (102)
2 PRK10984 DNA-binding transcrip 36.0 10 0.00022 32.5 -0.4 9 63-72 51-59 (127)
3 PF15261 DUF4591: Domain of un 35.9 21 0.00045 30.6 1.4 14 29-42 58-71 (134)
4 PF09527 ATPase_gene1: Putativ 35.4 9.2 0.0002 27.1 -0.7 13 67-80 21-33 (55)
5 PF07417 Crl: Transcriptional 30.5 9.2 0.0002 32.6 -1.6 10 63-73 49-58 (125)
6 KOG3088 Secretory carrier memb 16.8 1.1E+02 0.0023 29.9 2.5 21 21-41 74-94 (313)
7 COG0238 RpsR Ribosomal protein 16.5 1.3E+02 0.0029 23.6 2.5 21 19-39 54-74 (75)
8 PF04184 ST7: ST7 protein; In 16.2 71 0.0015 33.3 1.2 23 28-50 394-418 (539)
9 KOG3807 Predicted membrane pro 11.5 1.1E+02 0.0023 31.1 0.8 24 26-49 408-433 (556)
10 PF10725 DUF2517: Protein of u 11.1 1.2E+02 0.0025 23.2 0.7 18 32-50 31-48 (63)
No 1
>PF13178 DUF4005: Protein of unknown function (DUF4005)
Probab=99.49 E-value=4.3e-14 Score=114.07 Aligned_cols=57 Identities=47% Similarity=0.611 Sum_probs=47.1
Q ss_pred CCCCcccccccccccccCCCCCCCCCCCCccccccccccccccCCCCCCCCccCCCCC
Q 023939 202 APRYMVPTESAKAKSRLQSPLGVDKNGTPEKATLASAKKRLAYPPSPARPRRHSGPPK 259 (275)
Q Consensus 202 ~p~yM~~T~Sakak~RsqS~p~~~r~~~~e~~~~~~~kkRlS~~~s~~~~rr~S~~pk 259 (275)
+|+||++|||||||+|+||+|+| |+++.|.+....++||+|||...+.....+..+.
T Consensus 34 ~PsYMa~TeSakAK~RsqSaPrq-R~~~~~~~~~~~~~kR~S~~~~~~~~~~~~~~~~ 90 (102)
T PF13178_consen 34 LPSYMAATESAKAKARSQSAPRQ-RPGTPERAEKQSSKKRLSLPGSSNSGSSSSRSPR 90 (102)
T ss_pred CCCccchhhhhhhhhhccCCccc-CCCccccccccccccccccCCCCCCCcCCCCCCc
Confidence 89999999999999999999998 8888776655778999999987764555554443
No 2
>PRK10984 DNA-binding transcriptional regulator Crl; Provisional
Probab=35.97 E-value=10 Score=32.46 Aligned_cols=9 Identities=56% Similarity=1.966 Sum_probs=6.1
Q ss_pred CCCCCCchhh
Q 023939 63 NPTWGWSWLE 72 (275)
Q Consensus 63 ~~~wgWsWLE 72 (275)
+-=||| |||
T Consensus 51 REFWGW-Wme 59 (127)
T PRK10984 51 REFWGW-WME 59 (127)
T ss_pred hhhhhh-hee
Confidence 335999 665
No 3
>PF15261 DUF4591: Domain of unknown function (DUF4591)
Probab=35.89 E-value=21 Score=30.56 Aligned_cols=14 Identities=29% Similarity=0.560 Sum_probs=11.3
Q ss_pred HHHHHHHhhhhhhh
Q 023939 29 ATMRRERAMAYSFT 42 (275)
Q Consensus 29 aa~KRERAlAYAfS 42 (275)
+..+|+|||+||=+
T Consensus 58 ~~~~R~kALEYAK~ 71 (134)
T PF15261_consen 58 AESKRKKALEYAKN 71 (134)
T ss_pred hHHHHHHHHHHHHh
Confidence 45679999999963
No 4
>PF09527 ATPase_gene1: Putative F0F1-ATPase subunit (ATPase_gene1)
Probab=35.37 E-value=9.2 Score=27.09 Aligned_cols=13 Identities=46% Similarity=1.863 Sum_probs=11.1
Q ss_pred CCchhhhhhcCCCC
Q 023939 67 GWSWLERWMAARPW 80 (275)
Q Consensus 67 gWsWLERWMAarPW 80 (275)
|| |||+|..+.||
T Consensus 21 G~-~lD~~~~t~p~ 33 (55)
T PF09527_consen 21 GY-WLDKWFGTSPW 33 (55)
T ss_pred HH-HHHHHcCCChH
Confidence 45 99999999887
No 5
>PF07417 Crl: Transcriptional regulator Crl; InterPro: IPR009986 This family contains the bacterial transcriptional regulator Crl (approximately 130 residues long). This is a transcriptional regulator of the csgA curlin subunit gene for curli fibres that are found on the surface of certain bacteria [].These proteins bind to the sigma-S subunit of RNA polymerase, activating expression of sigma-S-regulated genes. They also stimulate RNA polymerase holoenzyme formation and may bind to several other sigma factors, such as sigma-70 and sigma-32.; GO: 0016987 sigma factor activity, 0045893 positive regulation of transcription, DNA-dependent, 0005737 cytoplasm; PDB: 3RPJ_A.
Probab=30.49 E-value=9.2 Score=32.64 Aligned_cols=10 Identities=60% Similarity=1.737 Sum_probs=6.1
Q ss_pred CCCCCCchhhh
Q 023939 63 NPTWGWSWLER 73 (275)
Q Consensus 63 ~~~wgWsWLER 73 (275)
+-=||| |||-
T Consensus 49 REFWGW-WleL 58 (125)
T PF07417_consen 49 REFWGW-WLEL 58 (125)
T ss_dssp --EEEE-EEEE
T ss_pred hhhhhh-heee
Confidence 345999 7763
No 6
>KOG3088 consensus Secretory carrier membrane protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=16.82 E-value=1.1e+02 Score=29.93 Aligned_cols=21 Identities=38% Similarity=0.316 Sum_probs=14.5
Q ss_pred HHHhhhhHHHHHHHHhhhhhh
Q 023939 21 ANLLSKYEATMRRERAMAYSF 41 (275)
Q Consensus 21 a~lq~k~Eaa~KRERAlAYAf 41 (275)
+.|.+|.+..-||||+|+-+-
T Consensus 74 eEL~Rke~ELdRREr~~a~~g 94 (313)
T KOG3088|consen 74 EELRRKEQELDRRERALARAG 94 (313)
T ss_pred HHHHHHHHHHhHHHHHHhhcc
Confidence 445555556678899998853
No 7
>COG0238 RpsR Ribosomal protein S18 [Translation, ribosomal structure and biogenesis]
Probab=16.53 E-value=1.3e+02 Score=23.60 Aligned_cols=21 Identities=19% Similarity=0.319 Sum_probs=18.0
Q ss_pred HHHHHhhhhHHHHHHHHhhhh
Q 023939 19 VEANLLSKYEATMRRERAMAY 39 (275)
Q Consensus 19 v~a~lq~k~Eaa~KRERAlAY 39 (275)
+-|+.|++-..||||=|.||-
T Consensus 54 ~sak~QR~la~AIKRAR~laL 74 (75)
T COG0238 54 TSAKHQRRLARAIKRARYLAL 74 (75)
T ss_pred ccHHHHHHHHHHHHHHHHHhc
Confidence 357889999999999999873
No 8
>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene. The molecular function of this protein is uncertain.
Probab=16.23 E-value=71 Score=33.33 Aligned_cols=23 Identities=43% Similarity=0.833 Sum_probs=18.0
Q ss_pred HHHHHH--HHhhhhhhhhhhhhhcC
Q 023939 28 EATMRR--ERAMAYSFTHQQTWKNS 50 (275)
Q Consensus 28 Eaa~KR--ERAlAYAfShQq~~r~~ 50 (275)
|..+|| +-|+||||-|.+.||+.
T Consensus 394 ehilkrGDSEAiaYAf~hL~hWk~v 418 (539)
T PF04184_consen 394 EHILKRGDSEAIAYAFFHLQHWKRV 418 (539)
T ss_pred HHhcCCCcHHHHHHHHHHHHHHhcC
Confidence 445555 56899999999999864
No 9
>KOG3807 consensus Predicted membrane protein ST7 (tumor suppressor in humans) [General function prediction only]
Probab=11.46 E-value=1.1e+02 Score=31.13 Aligned_cols=24 Identities=42% Similarity=0.747 Sum_probs=19.2
Q ss_pred hhHHHHHHH--Hhhhhhhhhhhhhhc
Q 023939 26 KYEATMRRE--RAMAYSFTHQQTWKN 49 (275)
Q Consensus 26 k~Eaa~KRE--RAlAYAfShQq~~r~ 49 (275)
--|-.+||- .||||||=|=|.||.
T Consensus 408 PPEHiLKRGDSEAlAYAFFHl~HWKr 433 (556)
T KOG3807|consen 408 PPEHILKRGDSEAIAYAFFHLQHWKR 433 (556)
T ss_pred CHHHHhhcccHHHHHHHHHHHHHHHH
Confidence 346677873 689999999989985
No 10
>PF10725 DUF2517: Protein of unknown function (DUF2517); InterPro: IPR019663 This entry represents proteins conserved in Proteobacteria and includes the predicted protein YbfA. The function is not known.
Probab=11.05 E-value=1.2e+02 Score=23.20 Aligned_cols=18 Identities=39% Similarity=0.892 Sum_probs=14.5
Q ss_pred HHHHhhhhhhhhhhhhhcC
Q 023939 32 RRERAMAYSFTHQQTWKNS 50 (275)
Q Consensus 32 KRERAlAYAfShQq~~r~~ 50 (275)
++.||-=|+|-|+ .|-.+
T Consensus 31 ~~dRArfYSyLhr-vW~KT 48 (63)
T PF10725_consen 31 RSDRARFYSYLHR-VWSKT 48 (63)
T ss_pred ecchhHHHHHHHH-HHHhc
Confidence 6789999999995 78543
Done!