Query 036245
Match_columns 64
No_of_seqs 76 out of 78
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 10:51:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036245.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036245hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06376 DUF1070: Protein of u 99.8 3.2E-21 6.9E-26 106.9 3.9 33 32-64 1-34 (34)
2 PF04145 Ctr: Ctr copper trans 48.3 14 0.00031 23.1 1.7 11 46-56 112-122 (144)
3 PF13670 PepSY_2: Peptidase pr 46.4 42 0.00092 19.7 3.5 17 34-50 21-37 (83)
4 PF07172 GRP: Glycine rich pro 44.7 18 0.00039 23.1 1.8 8 10-17 6-13 (95)
5 KOG3386 Copper transporter [In 36.8 25 0.00054 24.2 1.7 13 44-56 104-116 (155)
6 PF04956 TrbC: TrbC/VIRB2 fami 36.4 64 0.0014 19.2 3.3 15 45-59 49-64 (99)
7 PF10731 Anophelin: Thrombin i 36.2 67 0.0015 20.1 3.3 30 9-40 4-34 (65)
8 PF07172 GRP: Glycine rich pro 36.0 69 0.0015 20.4 3.5 22 2-23 1-22 (95)
9 PRK14864 putative biofilm stre 32.4 73 0.0016 20.9 3.2 18 3-20 3-20 (104)
10 PHA03405 hypothetical protein; 30.0 90 0.002 21.7 3.5 36 11-49 9-44 (130)
11 PF04246 RseC_MucC: Positive r 28.5 1.6E+02 0.0035 18.7 5.7 43 4-63 71-113 (135)
12 PRK11486 flagellar biosynthesi 27.6 1.9E+02 0.004 19.6 4.7 27 32-59 7-33 (124)
13 KOG3155 Actin-related protein 27.5 53 0.0011 23.8 2.1 20 32-51 30-49 (173)
14 PF03032 Brevenin: Brevenin/es 27.4 41 0.00089 19.3 1.3 18 11-28 6-23 (46)
15 PHA03410 hypothetical protein; 26.2 1.2E+02 0.0026 21.8 3.7 41 7-50 8-48 (170)
16 PF10868 DUF2667: Protein of u 24.2 24 0.00052 23.0 -0.1 20 2-21 1-20 (90)
17 PF04535 DUF588: Domain of unk 21.8 82 0.0018 20.5 2.0 15 42-56 89-103 (149)
18 PRK08475 F0F1 ATP synthase sub 21.6 2E+02 0.0043 19.3 3.9 18 41-58 23-40 (167)
No 1
>PF06376 DUF1070: Protein of unknown function (DUF1070); InterPro: IPR009424 This entry represents the arabinogalactan peptide family found in plants [].
Probab=99.83 E-value=3.2e-21 Score=106.89 Aligned_cols=33 Identities=73% Similarity=1.239 Sum_probs=30.9
Q ss_pred CCCC-CCCCCchhHHHHHHHHHHHHHHHHHHHhC
Q 036245 32 SPAP-APSSDGTAIDQGIAYILMVLALAITYLVH 64 (64)
Q Consensus 32 apAp-ap~~dg~aiDQgIay~Lm~~Al~~tyl~h 64 (64)
|||| +|++||++|||||+|+||++||++||++|
T Consensus 1 apAp~ap~~Dg~aiDqgiay~Lm~~Al~~tyl~H 34 (34)
T PF06376_consen 1 APAPAAPTSDGKAIDQGIAYMLMLVALVVTYLFH 34 (34)
T ss_pred CCCCCCcCCCcchhhHHHHHHHHHHHHHHHhhcC
Confidence 3566 89999999999999999999999999999
No 2
>PF04145 Ctr: Ctr copper transporter family; InterPro: IPR007274 The redox active metal copper is an essential cofactor in critical biological processes such as respiration, iron transport, oxidative stress protection, hormone production, and pigmentation. A widely conserved family of high-affinity copper transport proteins (Ctr proteins) mediates copper uptake at the plasma membrane. A series of clustered methionine residues in the hydrophilic extracellular domain, and an MXXXM motif in the second transmembrane domain, are important for copper uptake. These methionines probably coordinate copper during the process of metal transport.; GO: 0005375 copper ion transmembrane transporter activity, 0035434 copper ion transmembrane transport, 0016021 integral to membrane; PDB: 2LS4_A 2LS2_A 2LS3_A.
Probab=48.27 E-value=14 Score=23.09 Aligned_cols=11 Identities=27% Similarity=0.606 Sum_probs=8.8
Q ss_pred HHHHHHHHHHH
Q 036245 46 QGIAYILMVLA 56 (64)
Q Consensus 46 QgIay~Lm~~A 56 (64)
=+++|+||++.
T Consensus 112 ~~l~Y~LMLvv 122 (144)
T PF04145_consen 112 VLLGYLLMLVV 122 (144)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHhh
Confidence 36799999975
No 3
>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=46.40 E-value=42 Score=19.72 Aligned_cols=17 Identities=35% Similarity=0.505 Sum_probs=12.6
Q ss_pred CCCCCCCchhHHHHHHH
Q 036245 34 APAPSSDGTAIDQGIAY 50 (64)
Q Consensus 34 Apap~~dg~aiDQgIay 50 (64)
...|..+..+++|..+-
T Consensus 21 ~~~p~~~~~~~~~~~~~ 37 (83)
T PF13670_consen 21 SDAPPADWLSIEQAVAK 37 (83)
T ss_pred CCCCccccCCHHHHHHH
Confidence 46678888888887763
No 4
>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=44.67 E-value=18 Score=23.09 Aligned_cols=8 Identities=13% Similarity=0.737 Sum_probs=3.1
Q ss_pred HHHHHHHH
Q 036245 10 LPVIGFMF 17 (64)
Q Consensus 10 lvl~~~l~ 17 (64)
++|+.+++
T Consensus 6 ~llL~l~L 13 (95)
T PF07172_consen 6 FLLLGLLL 13 (95)
T ss_pred HHHHHHHH
Confidence 33443333
No 5
>KOG3386 consensus Copper transporter [Inorganic ion transport and metabolism]
Probab=36.77 E-value=25 Score=24.20 Aligned_cols=13 Identities=31% Similarity=0.828 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHH
Q 036245 44 IDQGIAYILMVLA 56 (64)
Q Consensus 44 iDQgIay~Lm~~A 56 (64)
+.=+|+|+||++.
T Consensus 104 ~Q~~~sY~LMLif 116 (155)
T KOG3386|consen 104 VQLGFSYLLMLIF 116 (155)
T ss_pred HHHHHHHHHHHHH
Confidence 3458999999975
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=36.37 E-value=64 Score=19.23 Aligned_cols=15 Identities=20% Similarity=0.439 Sum_probs=7.5
Q ss_pred HHH-HHHHHHHHHHHH
Q 036245 45 DQG-IAYILMVLALAI 59 (64)
Q Consensus 45 DQg-Iay~Lm~~Al~~ 59 (64)
=|| ++..+-.+++++
T Consensus 49 l~gp~~~~i~~i~ii~ 64 (99)
T PF04956_consen 49 LTGPIGKAIAIIAIIV 64 (99)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 345 555555555443
No 7
>PF10731 Anophelin: Thrombin inhibitor from mosquito; InterPro: IPR018932 Members of this family are all inhibitors of thrombin, the peptidase that is at the end of the blood coagulation cascade and which creates the clot by cleaving fibrinogen. The interaction between thrombin and fibrinogen involves two different areas of contact - via the thrombin active site and via a second substrate-binding site known as an exosite. The inhibitor acts by blocking the exosite, rather than by interacting with the active site. The inhibitors are from mosquitoes that feed on human blood and which, by inhibiting thrombin, prevent the blood from clotting and keep it flowing.
Probab=36.18 E-value=67 Score=20.06 Aligned_cols=30 Identities=30% Similarity=0.478 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHhhhcccCC-CCCCCCCCC
Q 036245 9 ALPVIGFMFMAILQLGNAQNMAP-SPAPAPSSD 40 (64)
Q Consensus 9 ~lvl~~~l~~al~~~~~aq~~a~-apApap~~d 40 (64)
.+++++|+-.++.. ..|+++| ++-.-|+-|
T Consensus 4 Kl~vialLC~aLva--~vQ~APQYa~GeeP~YD 34 (65)
T PF10731_consen 4 KLIVIALLCVALVA--IVQSAPQYAPGEEPSYD 34 (65)
T ss_pred hhhHHHHHHHHHHH--HHhcCcccCCCCCCCcC
Confidence 34555666555544 4565665 555555544
No 8
>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=35.98 E-value=69 Score=20.40 Aligned_cols=22 Identities=18% Similarity=0.116 Sum_probs=10.9
Q ss_pred cchhhHHHHHHHHHHHHHHHHH
Q 036245 2 MNSMRLYALPVIGFMFMAILQL 23 (64)
Q Consensus 2 M~sm~~~~lvl~~~l~~al~~~ 23 (64)
|+|=++..|.+++.++..+++-
T Consensus 1 MaSK~~llL~l~LA~lLlisSe 22 (95)
T PF07172_consen 1 MASKAFLLLGLLLAALLLISSE 22 (95)
T ss_pred CchhHHHHHHHHHHHHHHHHhh
Confidence 5555555555555444444433
No 9
>PRK14864 putative biofilm stress and motility protein A; Provisional
Probab=32.39 E-value=73 Score=20.87 Aligned_cols=18 Identities=22% Similarity=0.314 Sum_probs=8.2
Q ss_pred chhhHHHHHHHHHHHHHH
Q 036245 3 NSMRLYALPVIGFMFMAI 20 (64)
Q Consensus 3 ~sm~~~~lvl~~~l~~al 20 (64)
.-||.....++.+++++.
T Consensus 3 ~~mk~~~~l~~~l~LS~~ 20 (104)
T PRK14864 3 MVMRRFASLLLTLLLSAC 20 (104)
T ss_pred hHHHHHHHHHHHHHHhhh
Confidence 345554444444444433
No 10
>PHA03405 hypothetical protein; Provisional
Probab=30.04 E-value=90 Score=21.68 Aligned_cols=36 Identities=22% Similarity=0.148 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHhhhcccCCCCCCCCCCCchhHHHHHH
Q 036245 11 PVIGFMFMAILQLGNAQNMAPSPAPAPSSDGTAIDQGIA 49 (64)
Q Consensus 11 vl~~~l~~al~~~~~aq~~a~apApap~~dg~aiDQgIa 49 (64)
++++=.|.+++..+.+.-.+++- |+.--.+.||++|
T Consensus 9 Vl~FDvfLslmvgay~gI~PPsI---pp~Psys~aqa~A 44 (130)
T PHA03405 9 VIFFDIILAILMMSFASIQPPNI---STPPTTAEAMAQA 44 (130)
T ss_pred HHHHHHHHHHHHHhccCCCCCCC---CCCCCcHHHHHhh
Confidence 44444567777666654443332 3333478899887
No 11
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=28.53 E-value=1.6e+02 Score=18.69 Aligned_cols=43 Identities=26% Similarity=0.343 Sum_probs=24.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHh
Q 036245 4 SMRLYALPVIGFMFMAILQLGNAQNMAPSPAPAPSSDGTAIDQGIAYILMVLALAITYLV 63 (64)
Q Consensus 4 sm~~~~lvl~~~l~~al~~~~~aq~~a~apApap~~dg~aiDQgIay~Lm~~Al~~tyl~ 63 (64)
++-+|.+|++.+++.+++...... . ++.+.+.-++.+++.|++
T Consensus 71 a~l~Y~lPll~li~g~~l~~~~~~----~-------------e~~~~l~~l~~l~~~~~~ 113 (135)
T PF04246_consen 71 AFLVYLLPLLALIAGAVLGSYLGG----S-------------ELWAILGGLLGLALGFLI 113 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH----H-------------HHHHHHHHHHHHHHHHHH
Confidence 344677888887766655333221 0 555566666666666653
No 12
>PRK11486 flagellar biosynthesis protein FliO; Provisional
Probab=27.64 E-value=1.9e+02 Score=19.57 Aligned_cols=27 Identities=22% Similarity=0.290 Sum_probs=15.3
Q ss_pred CCCCCCCCCchhHHHHHHHHHHHHHHHH
Q 036245 32 SPAPAPSSDGTAIDQGIAYILMVLALAI 59 (64)
Q Consensus 32 apApap~~dg~aiDQgIay~Lm~~Al~~ 59 (64)
.++|++.+.+ ++-|-..-++.++++.+
T Consensus 7 ~~~~~~~~~~-~l~qv~~~L~lVl~lI~ 33 (124)
T PRK11486 7 VQSSAPVSGS-PLLQVSGALIGIIALIL 33 (124)
T ss_pred CcCCCCCCcc-hHHHHHHHHHHHHHHHH
Confidence 4455555544 46666666666666554
No 13
>KOG3155 consensus Actin-related protein Arp2/3 complex, subunit ARPC3 [Cytoskeleton]
Probab=27.54 E-value=53 Score=23.84 Aligned_cols=20 Identities=35% Similarity=0.699 Sum_probs=16.9
Q ss_pred CCCCCCCCCchhHHHHHHHH
Q 036245 32 SPAPAPSSDGTAIDQGIAYI 51 (64)
Q Consensus 32 apApap~~dg~aiDQgIay~ 51 (64)
-|||..++|---||++|.|+
T Consensus 30 GPAp~~~~d~DIvDEai~yF 49 (173)
T KOG3155|consen 30 GPAPRETKDTDIVDEAIYYF 49 (173)
T ss_pred CCCCCccCccchHHHHHHHh
Confidence 36777789999999999986
No 14
>PF03032 Brevenin: Brevenin/esculentin/gaegurin/rugosin family; InterPro: IPR004275 In addition to the highly specific cell-mediated immune system, vertebrates possess an efficient host-defence mechanism against invading microorganisms which involves the synthesis of highly potent antimicrobial peptides with a large spectrum of activity. This entry represents a number of these defence peptides secreted from the skin of amphibians, including the opiate-like dermorphins and deltorphins, and the antimicrobial dermoseptins and temporins.; GO: 0006952 defense response, 0042742 defense response to bacterium, 0005576 extracellular region
Probab=27.42 E-value=41 Score=19.27 Aligned_cols=18 Identities=11% Similarity=0.397 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHhhhcc
Q 036245 11 PVIGFMFMAILQLGNAQN 28 (64)
Q Consensus 11 vl~~~l~~al~~~~~aq~ 28 (64)
.+++++|.|+.+++.|++
T Consensus 6 sllLlfflG~ISlSlCee 23 (46)
T PF03032_consen 6 SLLLLFFLGTISLSLCEE 23 (46)
T ss_pred HHHHHHHHHHcccchHHH
Confidence 356677888888888864
No 15
>PHA03410 hypothetical protein; Provisional
Probab=26.25 E-value=1.2e+02 Score=21.79 Aligned_cols=41 Identities=22% Similarity=0.290 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccCCCCCCCCCCCchhHHHHHHH
Q 036245 7 LYALPVIGFMFMAILQLGNAQNMAPSPAPAPSSDGTAIDQGIAY 50 (64)
Q Consensus 7 ~~~lvl~~~l~~al~~~~~aq~~a~apApap~~dg~aiDQgIay 50 (64)
+-.-++++=.|.+++..+.+.-++++-.|-| --+.||++|-
T Consensus 8 LivyVl~FDvfLsl~vgay~gI~PPsIpp~P---sys~~Qa~As 48 (170)
T PHA03410 8 LIVYVLLFDVFLSLMVGAYSGITPPSIPPEP---SYSFAQAIAS 48 (170)
T ss_pred eeehHHHHHHHHHHHHHhccCCCCCCCCCCC---cchHHHHhHh
Confidence 3344455555677776665544433323333 3567887764
No 16
>PF10868 DUF2667: Protein of unknown function (DUF2667); InterPro: IPR022618 This family of proteins with unknown function appears to be restricted to Arabidopsis thaliana.
Probab=24.24 E-value=24 Score=22.97 Aligned_cols=20 Identities=25% Similarity=0.512 Sum_probs=14.6
Q ss_pred cchhhHHHHHHHHHHHHHHH
Q 036245 2 MNSMRLYALPVIGFMFMAIL 21 (64)
Q Consensus 2 M~sm~~~~lvl~~~l~~al~ 21 (64)
|+|+|++.++++.++...++
T Consensus 1 m~slk~st~~ilvvvclsiL 20 (90)
T PF10868_consen 1 MGSLKLSTFVILVVVCLSIL 20 (90)
T ss_pred CCceEEEeeehhHHHHHHHH
Confidence 88999988888765544444
No 17
>PF04535 DUF588: Domain of unknown function (DUF588); InterPro: IPR006702 This family of plant proteins contains a domain that may have a catalytic activity. It has a conserved arginine and aspartate that could form an active site. These proteins are predicted to contain 3 or 4 transmembrane helices.
Probab=21.78 E-value=82 Score=20.47 Aligned_cols=15 Identities=40% Similarity=0.567 Sum_probs=12.5
Q ss_pred hhHHHHHHHHHHHHH
Q 036245 42 TAIDQGIAYILMVLA 56 (64)
Q Consensus 42 ~aiDQgIay~Lm~~A 56 (64)
-..||.++|+|+-.+
T Consensus 89 f~~Dqv~~~ll~sa~ 103 (149)
T PF04535_consen 89 FILDQVLAYLLFSAA 103 (149)
T ss_pred hhHHHHHHHHHHHHH
Confidence 568999999998654
No 18
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=21.56 E-value=2e+02 Score=19.35 Aligned_cols=18 Identities=22% Similarity=0.314 Sum_probs=11.8
Q ss_pred chhHHHHHHHHHHHHHHH
Q 036245 41 GTAIDQGIAYILMVLALA 58 (64)
Q Consensus 41 g~aiDQgIay~Lm~~Al~ 58 (64)
+.-+=|.|..++++.-|.
T Consensus 23 ~~~~~~~inflil~~lL~ 40 (167)
T PRK08475 23 YDIIERTINFLIFVGILW 40 (167)
T ss_pred hhHHHHHHHHHHHHHHHH
Confidence 666778777776665443
Done!