Query 030355
Match_columns 179
No_of_seqs 31 out of 33
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 12:28:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030355.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030355hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04530 Viral_Beta_CD: Viral 48.3 6.2 0.00014 31.9 0.1 13 101-113 80-92 (122)
2 PF15513 DUF4651: Domain of un 41.4 23 0.00051 25.6 2.2 18 25-42 3-20 (62)
3 KOG2435 Uncharacterized conser 38.6 20 0.00044 32.9 1.8 48 110-164 262-321 (323)
4 PRK11546 zraP zinc resistance 37.0 17 0.00036 29.9 1.0 26 20-45 43-68 (143)
5 PF09932 DUF2164: Uncharacteri 36.3 39 0.00084 24.8 2.7 20 20-39 2-21 (76)
6 PF00140 Sigma70_r1_2: Sigma-7 35.6 29 0.00063 21.8 1.7 19 19-37 15-33 (37)
7 PF15477 SMAP: Small acidic pr 34.9 54 0.0012 23.2 3.2 38 3-40 20-57 (69)
8 PF13801 Metal_resist: Heavy-m 32.0 50 0.0011 23.0 2.6 26 19-44 40-65 (125)
9 COG2979 Uncharacterized protei 29.9 42 0.0009 29.8 2.3 21 15-35 121-141 (225)
10 smart00309 PAH Pancreatic horm 27.6 1.4E+02 0.0029 19.6 3.8 30 12-41 3-32 (36)
11 cd00225 API3 Ascaris pepsin in 26.9 72 0.0016 27.0 3.1 35 20-54 30-96 (159)
12 PF04391 DUF533: Protein of un 26.1 57 0.0012 27.6 2.4 21 15-35 90-110 (188)
13 PF14480 DNA_pol3_a_NI: DNA po 25.6 73 0.0016 21.8 2.5 25 17-41 44-68 (76)
14 COG3866 PelB Pectate lyase [Ca 24.9 47 0.001 31.0 1.9 55 97-164 264-321 (345)
15 PRK10201 G/U mismatch-specific 22.7 1.2E+02 0.0026 25.1 3.7 34 5-38 63-97 (168)
16 PF00159 Hormone_3: Pancreatic 22.0 2E+02 0.0044 18.7 3.9 30 12-41 3-32 (36)
No 1
>PF04530 Viral_Beta_CD: Viral Beta C/D like family; InterPro: IPR007617 This is a family of ssRNA positive-strand viral proteins. Conserved region is found in the Beta C and Beta D transcripts.
Probab=48.29 E-value=6.2 Score=31.89 Aligned_cols=13 Identities=23% Similarity=0.554 Sum_probs=10.8
Q ss_pred hhhhhhccccccc
Q 030355 101 VETQYYNQLVSID 113 (179)
Q Consensus 101 VETeYYkdL~~ID 113 (179)
.=++||||||+|-
T Consensus 80 ~~syfyQDLNsVe 92 (122)
T PF04530_consen 80 KGSYFYQDLNSVE 92 (122)
T ss_pred ccchheeeccceE
Confidence 4478999999975
No 2
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=41.45 E-value=23 Score=25.59 Aligned_cols=18 Identities=11% Similarity=0.311 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHhhhhcCC
Q 030355 25 EQVRIANQVRAQIDSMAP 42 (179)
Q Consensus 25 eq~~i~~qvRa~FD~~AP 42 (179)
.|++|.++||+||-.|-+
T Consensus 3 kre~i~~~iR~~fs~lG~ 20 (62)
T PF15513_consen 3 KREEITAEIRQFFSQLGE 20 (62)
T ss_pred HHHHHHHHHHHHHHhcCc
Confidence 688999999999987743
No 3
>KOG2435 consensus Uncharacterized conserved protein [Function unknown]
Probab=38.56 E-value=20 Score=32.94 Aligned_cols=48 Identities=17% Similarity=0.182 Sum_probs=37.1
Q ss_pred ccccCcC-----CCCCccceEEeecCCceeEeeCCCCCCCCCCccccCCC-------CCCCccCCcc
Q 030355 110 VSIDKDH-----HTTGTGFIRVANEGNGYNIRVGKGCDSGDRPVYKSNPA-------TNDWIPSVEY 164 (179)
Q Consensus 110 ~~IDKqH-----HTTGtGFIKv~k~~~~f~i~~~~~~~~~~~~~~ksNPA-------TNDWiPa~~~ 164 (179)
+-+|.|| |+++.||--++|-++.|.|..|-.. .+..|+ -|+|+|++..
T Consensus 262 riqDrq~e~nl~~vssig~sl~dk~dGpF~LEIDfIG-------v~~d~~H~EdFayE~y~~p~~r~ 321 (323)
T KOG2435|consen 262 RIQDRQHELNLDKVSSIGFSLADKVDGPFFLEIDFIG-------VFTDPAHTEDFAYENYPEPNPRL 321 (323)
T ss_pred ceeecccccCccceeeEeEEEeeccCCcceeeEEEEE-------EecCCCcccceeeeccccccccc
Confidence 4578888 8999999999996698999887643 455565 5889998753
No 4
>PRK11546 zraP zinc resistance protein; Provisional
Probab=36.98 E-value=17 Score=29.88 Aligned_cols=26 Identities=12% Similarity=-0.004 Sum_probs=23.6
Q ss_pred ccCHHHHHHHHHHHHHhhhhcCCCCC
Q 030355 20 VLDAVEQVRIANQVRAQIDSMAPKRP 45 (179)
Q Consensus 20 ~L~~Eeq~~i~~qvRa~FD~~APKRp 45 (179)
-|+||+|+++..-..+|++..+|-|-
T Consensus 43 ~LT~EQQa~~q~I~~~f~~~t~~LRq 68 (143)
T PRK11546 43 PLTTEQQAAWQKIHNDFYAQTSALRQ 68 (143)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 49999999999999999999998774
No 5
>PF09932 DUF2164: Uncharacterized conserved protein (DUF2164); InterPro: IPR018680 This family of various hypothetical prokaryotic proteins has no known function.
Probab=36.28 E-value=39 Score=24.84 Aligned_cols=20 Identities=10% Similarity=0.252 Sum_probs=18.1
Q ss_pred ccCHHHHHHHHHHHHHhhhh
Q 030355 20 VLDAVEQVRIANQVRAQIDS 39 (179)
Q Consensus 20 ~L~~Eeq~~i~~qvRa~FD~ 39 (179)
-|+.|+++++..+|+.||..
T Consensus 2 ~l~ke~k~~li~~iq~yf~~ 21 (76)
T PF09932_consen 2 KLSKEEKAELIDKIQRYFAE 21 (76)
T ss_pred cCCHHHHHHHHHHHHHHHHH
Confidence 48999999999999999964
No 6
>PF00140 Sigma70_r1_2: Sigma-70 factor, region 1.2; InterPro: IPR009042 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. ; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1SMY_F 1IW7_P 1SIG_A 3IYD_F 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P 3DXJ_P ....
Probab=35.62 E-value=29 Score=21.82 Aligned_cols=19 Identities=26% Similarity=0.426 Sum_probs=15.8
Q ss_pred cccCHHHHHHHHHHHHHhh
Q 030355 19 EVLDAVEQVRIANQVRAQI 37 (179)
Q Consensus 19 e~L~~Eeq~~i~~qvRa~F 37 (179)
.-|++||+..++.+|+.--
T Consensus 15 ~LLt~eeE~~LA~~i~~g~ 33 (37)
T PF00140_consen 15 PLLTAEEEIELARRIRKGD 33 (37)
T ss_dssp -EETTHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHhH
Confidence 4699999999999998753
No 7
>PF15477 SMAP: Small acidic protein family
Probab=34.87 E-value=54 Score=23.22 Aligned_cols=38 Identities=13% Similarity=0.223 Sum_probs=29.3
Q ss_pred eecccceeecCCCCcccccCHHHHHHHHHHHHHhhhhc
Q 030355 3 LAGVDQWTVTKPSRSDEVLDAVEQVRIANQVRAQIDSM 40 (179)
Q Consensus 3 ~~~vg~m~~~kPsRSDe~L~~Eeq~~i~~qvRa~FD~~ 40 (179)
|||+.--...-++.....++.+++.++.+++..+|+.-
T Consensus 20 LMG~kk~~~~~~~~~~~~~~~~~~~~l~~~Le~Qy~~a 57 (69)
T PF15477_consen 20 LMGGKKAGASAAASPNMALSKEKQEKLQQDLEQQYEAA 57 (69)
T ss_pred HhcCCCCCCCCCCCccccccHHHHHHHHHHHHHHHHHH
Confidence 56655533444567788899999999999999999864
No 8
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=32.04 E-value=50 Score=23.00 Aligned_cols=26 Identities=15% Similarity=0.116 Sum_probs=21.0
Q ss_pred cccCHHHHHHHHHHHHHhhhhcCCCC
Q 030355 19 EVLDAVEQVRIANQVRAQIDSMAPKR 44 (179)
Q Consensus 19 e~L~~Eeq~~i~~qvRa~FD~~APKR 44 (179)
.-||+|++.+|.+..++|+..+.+-|
T Consensus 40 l~Lt~eQ~~~l~~~~~~~~~~~~~~r 65 (125)
T PF13801_consen 40 LNLTPEQQAKLRALMDEFRQEMRALR 65 (125)
T ss_dssp S-TTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 47999999999999999998765433
No 9
>COG2979 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.91 E-value=42 Score=29.75 Aligned_cols=21 Identities=24% Similarity=0.498 Sum_probs=18.6
Q ss_pred CCcccccCHHHHHHHHHHHHH
Q 030355 15 SRSDEVLDAVEQVRIANQVRA 35 (179)
Q Consensus 15 sRSDe~L~~Eeq~~i~~qvRa 35 (179)
.+||-|++..|+++|+.+|+.
T Consensus 121 AkaDGhIDe~ERa~I~~~l~e 141 (225)
T COG2979 121 AKADGHIDEKERARIMQKLQE 141 (225)
T ss_pred HhhcCCcCHHHHHHHHHHHHH
Confidence 579999999999999987764
No 10
>smart00309 PAH Pancreatic hormones / neuropeptide F / peptide YY family. Pancreatic hormone is a regulator of pancreatic and gastrointestinal functions.
Probab=27.57 E-value=1.4e+02 Score=19.60 Aligned_cols=30 Identities=17% Similarity=0.284 Sum_probs=26.1
Q ss_pred cCCCCcccccCHHHHHHHHHHHHHhhhhcC
Q 030355 12 TKPSRSDEVLDAVEQVRIANQVRAQIDSMA 41 (179)
Q Consensus 12 ~kPsRSDe~L~~Eeq~~i~~qvRa~FD~~A 41 (179)
.+|-|--+--++||-++--+++|.||--+.
T Consensus 3 ~~P~~Pg~~a~~e~l~~Y~~~L~~Yinlit 32 (36)
T smart00309 3 SKPERPGDDASPEDLRQYLAALREYINLIT 32 (36)
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHhc
Confidence 468888888899999999999999998765
No 11
>cd00225 API3 Ascaris pepsin inhibitor-3 (API3); protein inhibitor that reversibly inhibits aspartic proteinase cathepsin E, and gastric enzymes pepsin and gastricsin.
Probab=26.92 E-value=72 Score=26.99 Aligned_cols=35 Identities=34% Similarity=0.510 Sum_probs=24.6
Q ss_pred ccCHHHHHHHH---HHHHHhhhhcC-----------------------------CCCCCCCCCCCCC
Q 030355 20 VLDAVEQVRIA---NQVRAQIDSMA-----------------------------PKRPTKPNRSEPD 54 (179)
Q Consensus 20 ~L~~Eeq~~i~---~qvRa~FD~~A-----------------------------PKRp~KP~RSE~s 54 (179)
-|+++||...+ +++-+|=+++. ||+|.||+=--++
T Consensus 30 eLt~~Eq~el~~y~~d~~~yK~~~k~~l~er~~~~~~~~~~~~~~~~~~~~~~~Pk~PkkPsFCt~~ 96 (159)
T cd00225 30 ELTPDEQQELAQYVEDVADYKEEVKQALKERQEGLKLRRAGKKKKAVTLAEEKLPKAPKKPSFCSPD 96 (159)
T ss_pred eCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcccccccccccccCCCCCCCCCcCCCC
Confidence 36777765544 45566666776 9999999876665
No 12
>PF04391 DUF533: Protein of unknown function (DUF533); InterPro: IPR007486 Some family members may be secreted or integral membrane proteins.
Probab=26.12 E-value=57 Score=27.56 Aligned_cols=21 Identities=24% Similarity=0.449 Sum_probs=18.4
Q ss_pred CCcccccCHHHHHHHHHHHHH
Q 030355 15 SRSDEVLDAVEQVRIANQVRA 35 (179)
Q Consensus 15 sRSDe~L~~Eeq~~i~~qvRa 35 (179)
.++|-|++.+|+.+|..++.+
T Consensus 90 AkADG~ID~~Er~~I~~~l~~ 110 (188)
T PF04391_consen 90 AKADGHIDEEERQRIEGALQE 110 (188)
T ss_pred HHcCCCCCHHHHHHHHHHHHH
Confidence 579999999999999887765
No 13
>PF14480 DNA_pol3_a_NI: DNA polymerase III polC-type N-terminus I
Probab=25.56 E-value=73 Score=21.76 Aligned_cols=25 Identities=16% Similarity=0.243 Sum_probs=23.5
Q ss_pred cccccCHHHHHHHHHHHHHhhhhcC
Q 030355 17 SDEVLDAVEQVRIANQVRAQIDSMA 41 (179)
Q Consensus 17 SDe~L~~Eeq~~i~~qvRa~FD~~A 41 (179)
|+..|+.+.-..+++.++..|..+|
T Consensus 44 ~~~~l~~~~~~~~~~~l~~~F~~ia 68 (76)
T PF14480_consen 44 SPHILPFEVYQKFEEKLKKQFSHIA 68 (76)
T ss_pred eCCcCCHHHHHHHHHHHHHHhCCcC
Confidence 7899999999999999999998876
No 14
>COG3866 PelB Pectate lyase [Carbohydrate transport and metabolism]
Probab=24.93 E-value=47 Score=31.04 Aligned_cols=55 Identities=27% Similarity=0.498 Sum_probs=37.0
Q ss_pred chhhhhhhhhcccccccCcCCCCCccceEEeecCCceeEeeCCCCCCCCCCccccCCCC---CCCccCCcc
Q 030355 97 QDEFVETQYYNQLVSIDKDHHTTGTGFIRVANEGNGYNIRVGKGCDSGDRPVYKSNPAT---NDWIPSVEY 164 (179)
Q Consensus 97 ~eEFVETeYYkdL~~IDKqHHTTGtGFIKv~k~~~~f~i~~~~~~~~~~~~~~ksNPAT---NDWiPa~~~ 164 (179)
-+=|||--||..+ +-|.||++--.. .+|-.+ +..+ -..+||+++-+ +-|-|++..
T Consensus 264 AkiyvE~NyF~~~--------~~~~~f~dt~~~-~GY~~~-d~gs---y~~~s~~~~~~~~G~~w~ps~~Y 321 (345)
T COG3866 264 AKIYVENNYFENG--------SEGLGFLDTKGT-SGYANQ-DSGS---YLNSSKSMSVRAGGVTWNPSSYY 321 (345)
T ss_pred eEEEEecceeccC--------CCCceeeecCCc-cceEEe-ccCc---eecccCCcccccCCccCCCCCCc
Confidence 4679999999988 556777765543 234332 1111 12788888888 999999855
No 15
>PRK10201 G/U mismatch-specific DNA glycosylase; Provisional
Probab=22.66 E-value=1.2e+02 Score=25.11 Aligned_cols=34 Identities=12% Similarity=0.119 Sum_probs=22.4
Q ss_pred ccccee-ecCCCCcccccCHHHHHHHHHHHHHhhh
Q 030355 5 GVDQWT-VTKPSRSDEVLDAVEQVRIANQVRAQID 38 (179)
Q Consensus 5 ~vg~m~-~~kPsRSDe~L~~Eeq~~i~~qvRa~FD 38 (179)
++|=|- +.||.+.|.-|+.+|...-.+.+++.|.
T Consensus 63 giGltdvv~Rpt~~aseL~~~E~~~g~~~L~~~i~ 97 (168)
T PRK10201 63 RCGVTKLVDRPTVQANEVSKQELRSGGRKLIEKIE 97 (168)
T ss_pred CcceeeeeecCCcChhhcCHHHHHhhHHHHHHHHH
Confidence 445554 7899999999999986444444444333
No 16
>PF00159 Hormone_3: Pancreatic hormone peptide; InterPro: IPR001955 Pancreatic hormone (PP) [] is a peptide synthesized in pancreatic islets of Langherhans, which acts as a regulator of pancreatic and gastrointestinal functions. The hormone is produced as a larger propeptide, which is enzymatically cleaved to yield the mature active peptide: this is 36 amino acids in length [] and has an amidated C terminus []. The hormone has a globular structure, residues 2-8 forming a left-handed poly-proline-II-like helix, residues 9-13 a beta turn, and 14-32 an alpha-helix,held close to the first helix by hydrophobic interactions []. Unlike glucagon, another peptide hormone, the structure of pancreatic peptide is preserved in aqueous solution []. Both N and C termini are required for activity: receptor binding and activation functions may reside in the N and C termini respectively []. Pancreatic hormone is part of a wider family of active peptides that includes: Neuropeptide Y (NPY) [], one of the most abundant peptides in the mammalian nervous system. NPY is implicated in the control of feeding and the secretion of the gonadotrophin-releasing hormone. Peptide YY (PYY) []. PPY is a gut peptide that inhibits exocrine pancreatic secretion, has a vasoconstrictory action and inhibits jejunal and colonic mobility. Various NPY and PYY-like polypeptides from fish and amphibians [, ]. Neuropeptide F (NPF) from invertebrates such as worms and snail. Skin peptide Tyr-Tyr (SPYY) from the frog Phyllomedusa bicolor. SPYY shows a large spectra of antibacterial and antifungal activity. All these peptides are 36 to 39 amino acids long. Like most active peptides, their C-terminal is amidated and they are synthesized as larger protein precursors.; GO: 0005179 hormone activity, 0005576 extracellular region; PDB: 1LJV_A 1BBA_A 1V1D_A 1PPT_A 2H3T_A 2H4B_A 2BF9_A 2H3S_B 1K8V_A 2DF0_A ....
Probab=22.02 E-value=2e+02 Score=18.68 Aligned_cols=30 Identities=20% Similarity=0.320 Sum_probs=25.9
Q ss_pred cCCCCcccccCHHHHHHHHHHHHHhhhhcC
Q 030355 12 TKPSRSDEVLDAVEQVRIANQVRAQIDSMA 41 (179)
Q Consensus 12 ~kPsRSDe~L~~Eeq~~i~~qvRa~FD~~A 41 (179)
.||-|--+.-++||-++--.++|.||--+.
T Consensus 3 ~~P~~P~~~aspeel~~Y~~~L~~Y~~lvt 32 (36)
T PF00159_consen 3 SKPERPGDFASPEELAQYYAALRHYINLVT 32 (36)
T ss_dssp SSSSSSSTTSSHHHHHHHHHHHHHHHHHHT
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHc
Confidence 478888888899999999999999997665
Done!