Query 033135
Match_columns 126
No_of_seqs 35 out of 37
Neff 2.4
Searched_HMMs 46136
Date Fri Mar 29 10:14:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033135.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033135hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07172 GRP: Glycine rich pro 84.9 0.4 8.6E-06 34.4 0.8 20 12-31 6-25 (95)
2 PF07265 TAP35_44: Tapetum spe 58.1 11 0.00024 29.0 2.8 23 6-30 3-25 (119)
3 TIGR03042 PS_II_psbQ_bact phot 53.4 27 0.00058 27.1 4.3 23 24-46 17-39 (142)
4 COG5249 RER1 Golgi protein inv 49.9 8.1 0.00017 31.4 1.0 26 82-107 84-115 (180)
5 PF13670 PepSY_2: Peptidase pr 47.5 19 0.00042 23.7 2.4 28 23-50 9-43 (83)
6 PF04956 TrbC: TrbC/VIRB2 fami 40.1 39 0.00086 22.6 3.0 14 22-35 21-34 (99)
7 PF05393 Hum_adeno_E3A: Human 37.8 34 0.00074 25.5 2.6 25 16-40 44-68 (94)
8 PF12269 zf-CpG_bind_C: CpG bi 33.5 9.4 0.0002 31.8 -1.0 22 84-105 189-210 (236)
9 TIGR03142 cytochro_ccmI cytoch 28.5 1.4E+02 0.0031 21.2 4.5 17 43-59 42-58 (117)
10 TIGR02876 spore_yqfD sporulati 28.1 86 0.0019 26.9 3.8 30 29-60 108-137 (382)
11 PRK10318 hypothetical protein; 24.8 77 0.0017 24.2 2.7 36 23-59 10-50 (121)
12 PF15240 Pro-rich: Proline-ric 22.2 55 0.0012 26.4 1.5 8 35-42 16-23 (179)
13 PF04647 AgrB: Accessory gene 21.9 1.4E+02 0.0031 21.9 3.6 15 32-46 123-137 (185)
14 PF15284 PAGK: Phage-encoded v 20.2 1.1E+02 0.0023 21.3 2.4 23 11-33 7-29 (61)
15 PF07222 PBP_sp32: Proacrosin 20.1 1.1E+02 0.0025 26.0 3.0 12 35-46 36-47 (243)
No 1
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=84.93 E-value=0.4 Score=34.36 Aligned_cols=20 Identities=50% Similarity=0.630 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHhhhcchhhh
Q 033135 12 LLILLLLIASTLLFASPVLA 31 (126)
Q Consensus 12 ~~~l~~l~~~~~~~~~~~~a 31 (126)
|+.|.|+++++||+.|.++|
T Consensus 6 ~llL~l~LA~lLlisSevaa 25 (95)
T PF07172_consen 6 FLLLGLLLAALLLISSEVAA 25 (95)
T ss_pred HHHHHHHHHHHHHHHhhhhh
Confidence 55555555444555555554
No 2
>PF07265 TAP35_44: Tapetum specific protein TAP35/TAP44; InterPro: IPR009891 This family consists of several plant tapetum specific proteins. Members of this family are found in Arabidopsis thaliana, Brassica napus and Sinapis alba. Members of this family may be involved in sporopollenin formation and/or deposition [].
Probab=58.08 E-value=11 Score=28.96 Aligned_cols=23 Identities=39% Similarity=0.450 Sum_probs=15.5
Q ss_pred hhhhhHHHHHHHHHHHHhhhcchhh
Q 033135 6 KIRRNSLLILLLLIASTLLFASPVL 30 (126)
Q Consensus 6 ~~~r~~~~~l~~l~~~~~~~~~~~~ 30 (126)
|+.|.+-+|||||++. |+.+..+
T Consensus 3 ~iSk~sslcLlll~~f--f~sS~pa 25 (119)
T PF07265_consen 3 KISKVSSLCLLLLVVF--FLSSQPA 25 (119)
T ss_pred hhHHHHHHHHHHHHHH--HHcCchh
Confidence 6788888888888743 4444433
No 3
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=53.42 E-value=27 Score=27.07 Aligned_cols=23 Identities=17% Similarity=0.023 Sum_probs=13.4
Q ss_pred hhcchhhhcCCCCCcHHHHHHHH
Q 033135 24 LFASPVLAKSRRPISDIEVRQKK 46 (126)
Q Consensus 24 ~~~~~~~aks~~~isD~Eirq~k 46 (126)
..++...++-|..+|+.+|.|.+
T Consensus 17 vsc~~p~~~~p~tysp~~l~~i~ 39 (142)
T TIGR03042 17 VSCSGPAAAVPPTYSPAQLAQIQ 39 (142)
T ss_pred HHcCCCcccCCCCCCHHHHHHHH
Confidence 44444444447778888774443
No 4
>COG5249 RER1 Golgi protein involved in Golgi-to-ER retrieval [Intracellular trafficking and secretion]
Probab=49.95 E-value=8.1 Score=31.36 Aligned_cols=26 Identities=46% Similarity=0.733 Sum_probs=19.1
Q ss_pred HhhhhcCCCCCccchhh------hhhhhhHHH
Q 033135 82 YEFVYESDPLEEGEKDF------VRSQEFKYC 107 (126)
Q Consensus 82 Y~~iYg~DpLEEGEiDv------~R~~sFk~C 107 (126)
.|.+=.+|.+||||+|- +|+-+||-=
T Consensus 84 ~eq~e~d~eieeg~kd~EFrPFIRrLPEFkFW 115 (180)
T COG5249 84 FEQIEDDDEIEEGEKDNEFRPFIRRLPEFKFW 115 (180)
T ss_pred HhhhccccccccccccchhhHHHHcCchhHHH
Confidence 45566789999999994 566676643
No 5
>PF13670 PepSY_2: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification.
Probab=47.46 E-value=19 Score=23.74 Aligned_cols=28 Identities=21% Similarity=0.265 Sum_probs=15.6
Q ss_pred hhhcchhhh----cCC--CCCcHHHH-HHHHhhhh
Q 033135 23 LLFASPVLA----KSR--RPISDIEV-RQKKMDCY 50 (126)
Q Consensus 23 ~~~~~~~~a----ks~--~~isD~Ei-rq~k~~C~ 50 (126)
++++++|+| ..| ..++..++ +..+...|
T Consensus 9 ~~~a~~A~A~~~~~~p~~~~~~~~~~~~~l~~~G~ 43 (83)
T PF13670_consen 9 ALLAAPAFASDDSDAPPADWLSIEQAVAKLEAQGY 43 (83)
T ss_pred HHHhHHhcCCCCCCCCccccCCHHHHHHHHHhcCC
Confidence 455677777 222 22455666 55566666
No 6
>PF04956 TrbC: TrbC/VIRB2 family; InterPro: IPR007039 Conjugal transfer protein, TrbC has been identified as a subunit of the pilus precursor in bacteria. The protein undergoes three processing steps before gaining its mature cyclic structure[]. This family also contains several VirB2 type IV secretion proteins. The virB2 gene encodes a putative type IV secretion system and is known to be a pathogenicity factor in Bartonella species [].
Probab=40.10 E-value=39 Score=22.59 Aligned_cols=14 Identities=43% Similarity=0.603 Sum_probs=10.5
Q ss_pred HhhhcchhhhcCCC
Q 033135 22 TLLFASPVLAKSRR 35 (126)
Q Consensus 22 ~~~~~~~~~aks~~ 35 (126)
+++.+.+|.|....
T Consensus 21 ~~~~~~~A~A~~~~ 34 (99)
T PF04956_consen 21 LLLLASPAFAQGGG 34 (99)
T ss_pred HHHhCchhhhcCCC
Confidence 46788888887774
No 7
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=37.84 E-value=34 Score=25.46 Aligned_cols=25 Identities=24% Similarity=0.359 Sum_probs=15.8
Q ss_pred HHHHHHHhhhcchhhhcCCCCCcHH
Q 033135 16 LLLIASTLLFASPVLAKSRRPISDI 40 (126)
Q Consensus 16 ~~l~~~~~~~~~~~~aks~~~isD~ 40 (126)
|++++++-|.+--+-.||+|||=.-
T Consensus 44 Fil~VilwfvCC~kRkrsRrPIYrP 68 (94)
T PF05393_consen 44 FILLVILWFVCCKKRKRSRRPIYRP 68 (94)
T ss_pred HHHHHHHHHHHHHHhhhccCCcccc
Confidence 3444443466677778888888543
No 8
>PF12269 zf-CpG_bind_C: CpG binding protein zinc finger C terminal domain; InterPro: IPR022056 This domain family is found in eukaryotes, and is approximately 240 amino acids in length. This domain is the zinc finger domain of a CpG binding DNA methyltransferase protein. It contains a CxxC motif which forms the zinc finger and binds to DNA.
Probab=33.50 E-value=9.4 Score=31.76 Aligned_cols=22 Identities=23% Similarity=0.338 Sum_probs=19.6
Q ss_pred hhhcCCCCCccchhhhhhhhhH
Q 033135 84 FVYESDPLEEGEKDFVRSQEFK 105 (126)
Q Consensus 84 ~iYg~DpLEEGEiDv~R~~sFk 105 (126)
.+|++++|..||||++|.+.|-
T Consensus 189 kH~~Wek~rraeidlEr~~~~~ 210 (236)
T PF12269_consen 189 KHYNWEKLRRAEIDLERVRQWL 210 (236)
T ss_pred cccchHHHHHHHHHHHHHHHHH
Confidence 5899999999999999998763
No 9
>TIGR03142 cytochro_ccmI cytochrome c-type biogenesis protein CcmI. This TPR repeat-containing protein is the CcmI protein (also called CycH) of c-type cytochrome biogenesis. CcmI is thought to act as an apo-cytochrome c chaperone. This model describes the N-terminal region of the protein, Members of this protein family
Probab=28.50 E-value=1.4e+02 Score=21.16 Aligned_cols=17 Identities=24% Similarity=0.395 Sum_probs=15.3
Q ss_pred HHHHhhhhhhhhcCccc
Q 033135 43 RQKKMDCYADVESGLWG 59 (126)
Q Consensus 43 rq~k~~C~~die~Glwg 59 (126)
|++-.+-++|.++|+-.
T Consensus 42 r~qL~ELe~d~~~G~l~ 58 (117)
T TIGR03142 42 RDRLAELERDLAEGLLD 58 (117)
T ss_pred HHHHHHHHHHHHcCCCC
Confidence 99999999999999865
No 10
>TIGR02876 spore_yqfD sporulation protein YqfD. YqfD is part of the sigma-E regulon in the sporulation program of endospore-forming Gram-positive bacteria. Mutation results in a sporulation defect in Bacillus subtilis. Members are found in all currently known endospore-forming bacteria, including the genera Bacillus, Symbiobacterium, Carboxydothermus, Clostridium, and Thermoanaerobacter.
Probab=28.12 E-value=86 Score=26.89 Aligned_cols=30 Identities=13% Similarity=0.295 Sum_probs=22.1
Q ss_pred hhhcCCCCCcHHHHHHHHhhhhhhhhcCcccc
Q 033135 29 VLAKSRRPISDIEVRQKKMDCYADVESGLWGP 60 (126)
Q Consensus 29 ~~aks~~~isD~Eirq~k~~C~~die~Glwg~ 60 (126)
..-+.+.++|+.||++.-.+.. |.-|.|.+
T Consensus 108 IeI~Gn~~~t~~~i~~~L~e~G--i~~G~~k~ 137 (382)
T TIGR02876 108 IDITGVKGETPYEIRKQLKEMG--IKPGVWKF 137 (382)
T ss_pred EEEECCCCCCHHHHHHHHHHcC--CCcCeeeC
Confidence 3446778999999998877664 55577764
No 11
>PRK10318 hypothetical protein; Provisional
Probab=24.77 E-value=77 Score=24.24 Aligned_cols=36 Identities=31% Similarity=0.230 Sum_probs=22.6
Q ss_pred hhhcchhhhcCCCCCcHHHHHHH-----HhhhhhhhhcCccc
Q 033135 23 LLFASPVLAKSRRPISDIEVRQK-----KMDCYADVESGLWG 59 (126)
Q Consensus 23 ~~~~~~~~aks~~~isD~Eirq~-----k~~C~~die~Glwg 59 (126)
+||+++++++.+.+-+.+||... .+.| +=|-||-|=
T Consensus 10 lL~~~~~~~~~~~~~~~~ei~~L~~~~~~s~c-~FiRNG~~h 50 (121)
T PRK10318 10 LLFTLPAYAKLTAHEEARINAMLEGLAQKKDC-TFVRNGDEH 50 (121)
T ss_pred HHHHHHHHhccCChhHHHHHHHHHHHHhcCCC-EEEECCCcC
Confidence 35566777777777777787544 3445 345677665
No 12
>PF15240 Pro-rich: Proline-rich
Probab=22.17 E-value=55 Score=26.44 Aligned_cols=8 Identities=25% Similarity=0.293 Sum_probs=4.0
Q ss_pred CCCcHHHH
Q 033135 35 RPISDIEV 42 (126)
Q Consensus 35 ~~isD~Ei 42 (126)
-+.+|+||
T Consensus 16 AQ~~dEdv 23 (179)
T PF15240_consen 16 AQSTDEDV 23 (179)
T ss_pred cccccccc
Confidence 34455554
No 13
>PF04647 AgrB: Accessory gene regulator B; InterPro: IPR006741 The accessory gene regulator (agr) of Staphylococcus aureus is the central regulatory system that controls the gene expression for a large set of virulence factors. The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. At low cell density, the agr genes are continuously expressed at basal levels. A signal molecule, autoinducing peptide (AIP), produced and secreted by the bacteria, accumulates outside of the cells. When the cell density increases and the AIP concentration reaches a threshold, it activates the agr response, i.e. activation of secreted protein gene expression and subsequent repression of cell wall-associated protein genes. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein [] involved in the proteolytic processing of AgrD, and may have both proteolytic and transporter activities, facilitating the export of the processed AgrD peptide []. ; GO: 0016020 membrane
Probab=21.86 E-value=1.4e+02 Score=21.87 Aligned_cols=15 Identities=27% Similarity=0.476 Sum_probs=9.8
Q ss_pred cCCCCCcHHHHHHHH
Q 033135 32 KSRRPISDIEVRQKK 46 (126)
Q Consensus 32 ks~~~isD~Eirq~k 46 (126)
..++|++++|.|.++
T Consensus 123 ~~~kpl~~~e~~~~~ 137 (185)
T PF04647_consen 123 TPNKPLDSEEKRKKL 137 (185)
T ss_pred cccCcCChHHHHHHH
Confidence 445799888864443
No 14
>PF15284 PAGK: Phage-encoded virulence factor
Probab=20.25 E-value=1.1e+02 Score=21.25 Aligned_cols=23 Identities=26% Similarity=0.361 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHhhhcchhhhcC
Q 033135 11 SLLILLLLIASTLLFASPVLAKS 33 (126)
Q Consensus 11 ~~~~l~~l~~~~~~~~~~~~aks 33 (126)
-|+.|++.+.++.|.+++-|+.+
T Consensus 7 ifL~l~~~LsA~~FSasamAa~~ 29 (61)
T PF15284_consen 7 IFLALVFILSAAGFSASAMAADS 29 (61)
T ss_pred HHHHHHHHHHHhhhhHHHHHHhh
Confidence 34433333323334444444433
No 15
>PF07222 PBP_sp32: Proacrosin binding protein sp32; InterPro: IPR009865 This family consists of several mammalian specific proacrosin binding protein sp32 sequences. sp32 is a sperm specific protein, which is known to bind with 55- and 53 kDa proacrosins and the 49 kDa acrosin intermediate. The exact function of sp32 is unclear, it is thought however that the binding of sp32 to proacrosin may be involved in packaging the acrosin zymogene into the acrosomal matrix [].
Probab=20.07 E-value=1.1e+02 Score=26.00 Aligned_cols=12 Identities=25% Similarity=0.213 Sum_probs=9.7
Q ss_pred CCCcHHHHHHHH
Q 033135 35 RPISDIEVRQKK 46 (126)
Q Consensus 35 ~~isD~Eirq~k 46 (126)
.|+||.|+..+=
T Consensus 36 sPLs~~EYe~FF 47 (243)
T PF07222_consen 36 SPLSPQEYERFF 47 (243)
T ss_pred CCCCHHHHHHHH
Confidence 899999996653
Done!