Query 033720
Match_columns 112
No_of_seqs 98 out of 100
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 05:31:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033720.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033720hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12014 DUF3506: Domain of un 100.0 2.9E-35 6.2E-40 217.8 8.4 74 1-77 59-134 (134)
2 cd04487 RecJ_OBF2_like RecJ_OB 63.0 5.8 0.00013 26.0 1.8 20 9-28 49-68 (73)
3 KOG2387 CTP synthase (UTP-ammo 44.7 6.3 0.00014 35.5 -0.4 20 4-23 74-93 (585)
4 PF08197 TT_ORF2a: pORF2a trun 41.7 12 0.00026 23.7 0.7 8 13-20 15-22 (49)
5 PF11869 DUF3389: Protein of u 39.2 34 0.00074 23.5 2.6 33 3-35 28-63 (75)
6 TIGR03737 PRTRC_B PRTRC system 34.3 64 0.0014 26.1 3.9 31 64-106 61-91 (228)
7 PF07619 DUF1581: Protein of u 33.9 33 0.00071 24.1 1.9 14 7-20 43-56 (84)
8 PF09284 RhgB_N: Rhamnogalactu 27.4 1.1E+02 0.0024 25.2 4.2 69 8-79 90-167 (249)
9 PF07495 Y_Y_Y: Y_Y_Y domain; 26.9 57 0.0012 19.6 2.0 13 17-29 35-47 (66)
10 PLN00115 pollen allergen group 26.3 68 0.0015 23.4 2.5 39 18-56 79-117 (118)
No 1
>PF12014 DUF3506: Domain of unknown function (DUF3506); InterPro: IPR021894 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 131 to 148 amino acids in length. This domain has a conserved KLTGD sequence motif.
Probab=100.00 E-value=2.9e-35 Score=217.76 Aligned_cols=74 Identities=53% Similarity=0.809 Sum_probs=68.4
Q ss_pred CceeeEEEEEEeeCCCCCcCeeEEEEEE-cCCCccCCCCCCCCCCCCcceE-EEeeeEEcCCCCCCCCeeeeEEEEEcC
Q 033720 1 MEFFEYVEAVKLTGDLNVPAGEVTFRAK-IGKGSRLPNRGKFPDELGVVAS-YSGQGRIADFGFRNPKWVDGELLQLNG 77 (112)
Q Consensus 1 ~~~~e~LeAvKLTGDpNVPrGevTf~A~-lg~~~~~~~~g~~p~e~~~~ar-~~g~G~VA~~GF~~p~~i~~~Lilis~ 77 (112)
++|+|+|||||||||||||||||||+|+ |++.+++ +++.++++.|+| ||||||||++||+|++||+|||++||+
T Consensus 59 ~~~~~~leAiKLTGDpNVPrGevtF~A~DiG~~~~i---~~a~~~~f~G~r~vk~~G~vA~~GF~~~~~id~eLilis~ 134 (134)
T PF12014_consen 59 REFRGRLEAIKLTGDPNVPRGEVTFRADDIGPGGRI---RVAHEGPFPGARRVKGQGHVAEPGFRNDKWIDGELILISG 134 (134)
T ss_pred ccccceEEEEEecCCCCCcCccEEEEecccCCCccc---ccccCCCCCceEEEecCCeEcCcCcCCCcceeeEEEEecC
Confidence 3699999999999999999999999999 9999999 556666777777 999999999999999999999999986
No 2
>cd04487 RecJ_OBF2_like RecJ_OBF2_like: A subfamily of OB folds corresponding to the second OB fold (OBF2) of archaeal-specific proteins with similarity to eubacterial RecJ. RecJ is an ssDNA-specific exonuclease. Although the overall sequence similarity of these proteins to eubacterial RecJ proteins is marginal, they appear to carry motifs, which have been shown to be essential for nuclease function in Escherichia coli RecJ. In addition to this OB fold, most proteins in this subfamily contain: i) an N-terminal OB fold belonging to a different domain family (the ribosomal S1-like RNA-binding family); and ii) a domain, C-terminal to OBF2, characteristic of DHH family proteins. DHH family proteins include E. coli RecJ, and are predicted to have a phosphoesterase function.
Probab=62.97 E-value=5.8 Score=26.02 Aligned_cols=20 Identities=20% Similarity=0.524 Sum_probs=17.4
Q ss_pred EEEeeCCCCCcCeeEEEEEE
Q 033720 9 AVKLTGDLNVPAGEVTFRAK 28 (112)
Q Consensus 9 AvKLTGDpNVPrGevTf~A~ 28 (112)
.|.++|-.++|+|++++.|+
T Consensus 49 ~V~v~G~v~~~~G~~ql~v~ 68 (73)
T cd04487 49 IVRVTGEVEPRDGQLQIEVE 68 (73)
T ss_pred EEEEEEEEecCCeEEEEEEe
Confidence 46788889999999999987
No 3
>KOG2387 consensus CTP synthase (UTP-ammonia lyase) [Nucleotide transport and metabolism]
Probab=44.66 E-value=6.3 Score=35.54 Aligned_cols=20 Identities=30% Similarity=0.547 Sum_probs=18.5
Q ss_pred eeEEEEEEeeCCCCCcCeeE
Q 033720 4 FEYVEAVKLTGDLNVPAGEV 23 (112)
Q Consensus 4 ~e~LeAvKLTGDpNVPrGev 23 (112)
||+.-.|+||.|.|++-|++
T Consensus 74 YERfldi~Lt~dNNITtGKi 93 (585)
T KOG2387|consen 74 YERFLDITLTRDNNITTGKI 93 (585)
T ss_pred hhhhccceeeccCCcccchH
Confidence 78889999999999999986
No 4
>PF08197 TT_ORF2a: pORF2a truncated protein; InterPro: IPR013267 Most isolated ORF2 of TT virus (TTV) encode a 49 amino acid protein (pORF2a) because of an in-frame stop codon. ORF2s isolated from G1 TTV encode a 202 amino acid protein (pORF2ab) [].
Probab=41.70 E-value=12 Score=23.67 Aligned_cols=8 Identities=50% Similarity=0.816 Sum_probs=7.2
Q ss_pred eCCCCCcC
Q 033720 13 TGDLNVPA 20 (112)
Q Consensus 13 TGDpNVPr 20 (112)
.|||+|||
T Consensus 15 eg~prvPR 22 (49)
T PF08197_consen 15 EGDPRVPR 22 (49)
T ss_pred cCCCCCcc
Confidence 49999998
No 5
>PF11869 DUF3389: Protein of unknown function (DUF3389); InterPro: IPR021811 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 80 amino acids in length.
Probab=39.16 E-value=34 Score=23.50 Aligned_cols=33 Identities=30% Similarity=0.511 Sum_probs=26.9
Q ss_pred eeeEEEEEEeeCCCCC---cCeeEEEEEEcCCCccC
Q 033720 3 FFEYVEAVKLTGDLNV---PAGEVTFRAKIGKGSRL 35 (112)
Q Consensus 3 ~~e~LeAvKLTGDpNV---PrGevTf~A~lg~~~~~ 35 (112)
.+-..++|+|-|++|| -.|++.|-.+++..-.+
T Consensus 28 LqA~~D~I~li~~anvi~A~g~~vkWSikLD~eeQL 63 (75)
T PF11869_consen 28 LQAQVDDITLIGGANVIIANGGEVKWSIKLDNEEQL 63 (75)
T ss_pred EEEeeeehhhcCCCcEEEEeCcceEEEEEcCCHHHH
Confidence 3557889999999998 57999999999876443
No 6
>TIGR03737 PRTRC_B PRTRC system protein B. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. This protein family is designated protein B.
Probab=34.29 E-value=64 Score=26.05 Aligned_cols=31 Identities=19% Similarity=0.448 Sum_probs=25.2
Q ss_pred CCCeeeeEEEEEcCCcCCCccccCCeeEEEEEecCCeeEEEEe
Q 033720 64 NPKWVDGELLQLNGKVGMGPYVKGADLGFLYVVPEQSFLVLFN 106 (112)
Q Consensus 64 ~p~~i~~~Lilis~d~~~~~~~~g~~~gflw~~p~~~~~~lf~ 106 (112)
+..|+|..++.++++. .+||.|-+.=.++|+
T Consensus 61 ~~g~lp~nvL~~~~~~------------~vWy~p~~~R~v~F~ 91 (228)
T TIGR03737 61 DLEFLDPNVLALSPGL------------MVWWTPAATRRVFFQ 91 (228)
T ss_pred CCcccCccEEEeCCCe------------EEEEecCceEEEEEe
Confidence 4589999999999988 489999775567885
No 7
>PF07619 DUF1581: Protein of unknown function (DUF1581); InterPro: IPR022660 Several Rhodopirellula baltica proteins share this domain. They also match PF07622 from PFAM
Probab=33.86 E-value=33 Score=24.06 Aligned_cols=14 Identities=21% Similarity=0.622 Sum_probs=12.0
Q ss_pred EEEEEeeCCCCCcC
Q 033720 7 VEAVKLTGDLNVPA 20 (112)
Q Consensus 7 LeAvKLTGDpNVPr 20 (112)
+.-+.|||||-+|+
T Consensus 43 frNlrItG~P~iP~ 56 (84)
T PF07619_consen 43 FRNLRITGSPEIPD 56 (84)
T ss_pred eeeeEEcCCCcCCC
Confidence 45688999999997
No 8
>PF09284 RhgB_N: Rhamnogalacturonase B, N-terminal; InterPro: IPR015364 This domain is found in prokaryotic enzyme rhamnogalacturonase B, it adopts a structure consisting of a beta supersandwich, with eighteen strands in two beta-sheets. The exact function of the domain is unknown, but a putative role includes carbohydrate-binding []. ; GO: 0016837 carbon-oxygen lyase activity, acting on polysaccharides, 0030246 carbohydrate binding, 0005975 carbohydrate metabolic process; PDB: 1NKG_A 2XHN_B 3NJX_A 3NJV_A.
Probab=27.39 E-value=1.1e+02 Score=25.23 Aligned_cols=69 Identities=22% Similarity=0.429 Sum_probs=37.3
Q ss_pred EEEEeeCCCCCcCeeEEEEEEcCCCccCCCC---CCCCCCCCcce-----E-EEeeeEEcCCCCCCCCeeeeEEEEEcCC
Q 033720 8 EAVKLTGDLNVPAGEVTFRAKIGKGSRLPNR---GKFPDELGVVA-----S-YSGQGRIADFGFRNPKWVDGELLQLNGK 78 (112)
Q Consensus 8 eAvKLTGDpNVPrGevTf~A~lg~~~~~~~~---g~~p~e~~~~a-----r-~~g~G~VA~~GF~~p~~i~~~Lilis~d 78 (112)
.|+-.|.||+| ||.-|.|+|.+.- +|+. +.....-+..| . ..+.|+=+..=|.+.|+||-+..-++++
T Consensus 90 maT~~~~e~~i--gelRfIaRL~~~~-lpn~~~~~~~~~~~g~taIEgsDVf~~~~G~TrSKfYSs~r~IDd~~hgv~g~ 166 (249)
T PF09284_consen 90 MATYITAEPSI--GELRFIARLNRSI-LPNEYPYGDVSTTDGGTAIEGSDVFLVSDGQTRSKFYSSQRFIDDDVHGVSGS 166 (249)
T ss_dssp EEEEESS--TT--S-EEEEEEE-TTT-S-EEETTGGGG--TT-EEEETTTEEEE-TTEEEEGGGG--BGGG-SEEEEE-S
T ss_pred EEeccCCCCCc--cceEEEEEccccc-CCCCCCcccccccCCceEEeeccEEEecCceEeeeeccccceeccceEEEecC
Confidence 57788999987 7899999997543 2221 11111001001 1 2336888888899999999999888877
Q ss_pred c
Q 033720 79 V 79 (112)
Q Consensus 79 ~ 79 (112)
.
T Consensus 167 ~ 167 (249)
T PF09284_consen 167 A 167 (249)
T ss_dssp S
T ss_pred C
Confidence 6
No 9
>PF07495 Y_Y_Y: Y_Y_Y domain; InterPro: IPR011123 This region is mostly found at the end of the beta propellers (IPR011110 from INTERPRO) in a family of two component regulators. However they are also found tandemly repeated in Q891H4 from SWISSPROT without other signal conduction domains being present. It is named after the conserved tyrosines found in the alignment. The exact function is not known.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=26.87 E-value=57 Score=19.59 Aligned_cols=13 Identities=31% Similarity=0.695 Sum_probs=10.0
Q ss_pred CCcCeeEEEEEEc
Q 033720 17 NVPAGEVTFRAKI 29 (112)
Q Consensus 17 NVPrGevTf~A~l 29 (112)
|.|.|.++|.+..
T Consensus 35 ~L~~G~Y~l~V~a 47 (66)
T PF07495_consen 35 NLPPGKYTLEVRA 47 (66)
T ss_dssp S--SEEEEEEEEE
T ss_pred eCCCEEEEEEEEE
Confidence 7899999999994
No 10
>PLN00115 pollen allergen group 3; Provisional
Probab=26.32 E-value=68 Score=23.36 Aligned_cols=39 Identities=13% Similarity=0.119 Sum_probs=26.0
Q ss_pred CcCeeEEEEEEcCCCccCCCCCCCCCCCCcceEEEeeeE
Q 033720 18 VPAGEVTFRAKIGKGSRLPNRGKFPDELGVVASYSGQGR 56 (112)
Q Consensus 18 VPrGevTf~A~lg~~~~~~~~g~~p~e~~~~ar~~g~G~ 56 (112)
.|+|-.|||.....+..+--..++|.....+..|++.=|
T Consensus 79 pl~GPlS~R~t~~~G~~~va~nViPa~Wk~G~tY~s~vq 117 (118)
T PLN00115 79 PLKGPFSVRFLVKGGGYRVVDDVIPESFKAGSVYKTGIQ 117 (118)
T ss_pred CCCCceEEEEEEeCCCEEEECceECCCCCCCCEEecccc
Confidence 568888888876544443335678888767777877543
Done!