Query 033540
Match_columns 117
No_of_seqs 33 out of 35
Neff 2.4
Searched_HMMs 46136
Date Fri Mar 29 03:28:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033540.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033540hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG3630 OadG Na+-transporting 71.4 2.5 5.4E-05 30.3 1.4 18 5-22 17-34 (84)
2 PF04995 CcmD: Heme exporter p 58.9 5.9 0.00013 24.3 1.2 19 2-20 9-27 (46)
3 TIGR03141 cytochro_ccmD heme e 55.7 7.1 0.00015 24.0 1.2 17 2-18 10-26 (45)
4 cd06918 ChtBD1_like Domain obs 50.9 7.8 0.00017 25.1 0.9 22 85-115 27-48 (51)
5 PF11478 Tachystatin_B: Antimi 40.1 20 0.00043 22.9 1.4 21 85-105 17-39 (42)
6 smart00765 MANEC The MANEC dom 35.9 24 0.00053 25.0 1.5 22 86-109 67-88 (93)
7 PF07502 MANEC: MANEC domain; 34.0 34 0.00073 24.0 2.0 20 88-109 68-87 (92)
8 PF11837 DUF3357: Domain of un 33.7 14 0.0003 26.2 0.0 12 9-20 37-48 (106)
9 PF02950 Conotoxin: Conotoxin; 33.4 37 0.00081 21.5 2.0 14 77-90 52-67 (75)
10 KOG4623 Uncharacterized conser 26.6 20 0.00044 33.3 -0.2 35 39-73 116-151 (611)
11 PF10960 DUF2762: Protein of u 24.1 42 0.00092 22.9 1.1 18 7-24 14-31 (71)
12 PF11674 DUF3270: Protein of u 21.7 62 0.0014 23.2 1.6 17 6-22 53-70 (90)
13 PF06783 UPF0239: Uncharacteri 21.5 96 0.0021 22.3 2.5 19 4-22 24-44 (85)
14 PF09451 ATG27: Autophagy-rela 21.4 1.7E+02 0.0037 23.3 4.2 55 6-67 205-262 (268)
No 1
>COG3630 OadG Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, gamma subunit [Energy production and conversion]
Probab=71.42 E-value=2.5 Score=30.32 Aligned_cols=18 Identities=39% Similarity=0.669 Sum_probs=11.7
Q ss_pred hhHHHHHHHHHHHhhccC
Q 033540 5 GVSFSLLFLLILANVISP 22 (117)
Q Consensus 5 ~~~~~~~fl~~~a~v~~~ 22 (117)
|+.|-++||+||+-+|-.
T Consensus 17 Gmg~VflfL~iLi~~~~~ 34 (84)
T COG3630 17 GMGFVFLFLSILIYAMRG 34 (84)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 566667777777765543
No 2
>PF04995 CcmD: Heme exporter protein D (CcmD); InterPro: IPR007078 The CcmD protein is part of a C-type cytochrome biogenesis operon []. The exact function of this protein is uncertain. It has been proposed that CcmC, CcmD and CcmE interact directly with each other, establishing a cytoplasm to periplasm haem delivery pathway for cytochrome c maturation []. This protein is found fused to CcmE in P52224 from SWISSPROT. These proteins contain a predicted transmembrane helix.; GO: 0006810 transport, 0016021 integral to membrane
Probab=58.86 E-value=5.9 Score=24.32 Aligned_cols=19 Identities=37% Similarity=0.418 Sum_probs=13.5
Q ss_pred CCchhHHHHHHHHHHHhhc
Q 033540 2 SAYGVSFSLLFLLILANVI 20 (117)
Q Consensus 2 ~~~~~~~~~~fl~~~a~v~ 20 (117)
+|||+++.+|...++.++.
T Consensus 9 ~sYg~t~~~l~~l~~~~~~ 27 (46)
T PF04995_consen 9 SSYGVTALVLAGLIVWSLR 27 (46)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5899998777766666543
No 3
>TIGR03141 cytochro_ccmD heme exporter protein CcmD. The model for this protein family describes a small, hydrophobic, and only moderately well-conserved protein, tricky to identify accurately for all of these reasons. However, members are found as part of large operons involved in heme export across the inner membrane for assembly of c-type cytochromes in a large number of bacteria. The gray zone between the trusted cutoff (13.0) and noise cutoff (4.75) includes both low-scoring examples and false-positive matches to hydrophobic domains of longer proteins.
Probab=55.73 E-value=7.1 Score=23.97 Aligned_cols=17 Identities=41% Similarity=0.458 Sum_probs=11.4
Q ss_pred CCchhHHHHHHHHHHHh
Q 033540 2 SAYGVSFSLLFLLILAN 18 (117)
Q Consensus 2 ~~~~~~~~~~fl~~~a~ 18 (117)
+|||++|.+|..+++.+
T Consensus 10 ~sYg~t~l~l~~li~~~ 26 (45)
T TIGR03141 10 LAYGITALVLAGLILWS 26 (45)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 57888877666655554
No 4
>cd06918 ChtBD1_like Domain observed in several metazoan proteins. The pattern of conserved cysteine residues resembles that of chitin binding domains found in plants and fungi.
Probab=50.89 E-value=7.8 Score=25.10 Aligned_cols=22 Identities=36% Similarity=1.174 Sum_probs=19.4
Q ss_pred CCceeeeecCCCCCCeeeeeeeccccccCcc
Q 033540 85 SPCCYAINCNIPNKPFGFCSFTPQTCNCLRC 115 (117)
Q Consensus 85 t~CCY~InCniP~kPFG~CsFtP~tC~C~gC 115 (117)
+|||. +.|+|--++..|+|.+|
T Consensus 27 ~pCCS---------~~gwCG~t~~hC~C~~C 48 (51)
T cd06918 27 KPCCS---------NGGYCGSGSEHCDCPGC 48 (51)
T ss_pred CcccC---------CCceeCCCcccccCCCC
Confidence 78886 56999999999999998
No 5
>PF11478 Tachystatin_B: Antimicrobial chitin binding protein tachystatin B; InterPro: IPR020957 Tachystatin B is an antimicrobial chitin binding peptide and consists of two isotopes B1 and B2. Both structures contain a short antiparallel beta sheet with an inhibitory cysteine knot motif. Tyr(14) and Arg(17) are thought to be the essential residues for chitin binding []. ; PDB: 2DCW_A 2DCV_A.
Probab=40.06 E-value=20 Score=22.91 Aligned_cols=21 Identities=38% Similarity=1.091 Sum_probs=15.7
Q ss_pred CCceeeeec--CCCCCCeeeeee
Q 033540 85 SPCCYAINC--NIPNKPFGFCSF 105 (117)
Q Consensus 85 t~CCY~InC--niP~kPFG~CsF 105 (117)
-.||+..-| +.||--||.||-
T Consensus 17 rsccfgyycrrdfpgsifgtcsr 39 (42)
T PF11478_consen 17 RSCCFGYYCRRDFPGSIFGTCSR 39 (42)
T ss_dssp S-BSTTEEEEESSTT-SEEEEEE
T ss_pred CceEeEEEEcccCCCceeeeeec
Confidence 357888777 799999999983
No 6
>smart00765 MANEC The MANEC domain was formerly called MANSC. This domain, comprising 8 conserved cysteines, is found in the N terminus of higher multicellular animal membrane and extracellular proteins. It is postulated that this domain may play a role in the formation of protein complexes involving various protease activators and inhibitors. It is possible that some of the cysteine residues in the MANSC domain form structurally important disulfide bridges. All of the MANSC-containing proteins contain predicted transmembrane regions and signal peptides. It has been proposed that the MANSC domain in HAI-1 might function through binding with hepatocyte growth factor activator and matriptase.
Probab=35.85 E-value=24 Score=25.02 Aligned_cols=22 Identities=41% Similarity=1.040 Sum_probs=16.9
Q ss_pred CceeeeecCCCCCCeeeeeeeccc
Q 033540 86 PCCYAINCNIPNKPFGFCSFTPQT 109 (117)
Q Consensus 86 ~CCY~InCniP~kPFG~CsFtP~t 109 (117)
+=||-|||..|++ -.|.|.|++
T Consensus 67 ~~CyLf~C~~~~~--~vC~f~~~~ 88 (93)
T smart00765 67 GNCYLFNCTYPGK--EVCKFKPHE 88 (93)
T ss_pred CceEEEEcCCCCc--ccccccccc
Confidence 4499999998876 368888764
No 7
>PF07502 MANEC: MANEC domain; InterPro: IPR011106 The MANSC (motif at N terminus with seven cysteines) domain is a module with a well-conserved seven cysteine motif that is present at the N terminus of higher multicellular animal membrane and extracellular proteins. It is possible that some of the cysteine residues in the MANSC domain form structurally important disulphide bridges. All of the MANSC-containing proteins contain predicted transmembrane regions and signal peptides. It has been proposed that the MANSC domain in HAI-1 might function through binding with hepatocyte growth factor activator and matriptase [].
Probab=33.97 E-value=34 Score=23.97 Aligned_cols=20 Identities=45% Similarity=1.072 Sum_probs=16.7
Q ss_pred eeeeecCCCCCCeeeeeeeccc
Q 033540 88 CYAINCNIPNKPFGFCSFTPQT 109 (117)
Q Consensus 88 CY~InCniP~kPFG~CsFtP~t 109 (117)
||-+||..|++ -.|.|+|++
T Consensus 68 CyLf~C~~~~~--~~C~f~~~~ 87 (92)
T PF07502_consen 68 CYLFNCLYPGK--FVCKFKPHK 87 (92)
T ss_pred EEEEEcCCCCC--CeeeccccC
Confidence 99999998874 479998874
No 8
>PF11837 DUF3357: Domain of unknown function (DUF3357); InterPro: IPR021792 This entry represents the N-terminal domain of beta-fructofuranosidase, whcih is involved in the hydrolysis of terminal non-reducing beta-D-fructofuranoside residues in beta-D-fructofuranosides. ; GO: 0004564 beta-fructofuranosidase activity, 0004575 sucrose alpha-glucosidase activity; PDB: 3UGG_A 3UGH_B 3UGF_B.
Probab=33.75 E-value=14 Score=26.24 Aligned_cols=12 Identities=67% Similarity=0.916 Sum_probs=0.0
Q ss_pred HHHHHHHHHhhc
Q 033540 9 SLLFLLILANVI 20 (117)
Q Consensus 9 ~~~fl~~~a~v~ 20 (117)
+++||++|+.+|
T Consensus 37 s~~~ll~lval~ 48 (106)
T PF11837_consen 37 SLLFLLSLVALI 48 (106)
T ss_dssp ------------
T ss_pred HHHHHHHHHHHH
Confidence 567777777777
No 9
>PF02950 Conotoxin: Conotoxin; InterPro: IPR004214 Cone snail toxins, conotoxins, are small neurotoxic peptides with disulphide connectivity that target ion-channels or G-protein coupled receptors. Based on the number and pattern of disulphide bonds and biological activities, conotoxins can be classified into several families []. Omega, delta and kappa families of conotoxins have a knottin or inhibitor cysteine knot scaffold. The knottin scaffold is a very special disulphide-through-disulphide knot, in which the III-VI disulphide bond crosses the macrocycle formed by two other disulphide bonds (I-IV and II-V) and the interconnecting backbone segments, where I-VI indicates the six cysteine residues starting from the N terminus. The disulphide bonding network, as well as specific amino acids in inter-cysteine loops, provide the specificity of conotoxins []. The cysteine arrangements are the same for omega, delta and kappa families, even though omega conotoxins are calcium channel blockers, whereas delta conotoxins delay the inactivation of sodium channels, and kappa conotoxins are potassium channel blockers []. Mu conotoxins have two types of cysteine arrangements, but the knottin scaffold is not observed. Mu conotoxins target the voltage-gated sodium channels [], and are useful probes for investigating voltage-dependent sodium channels of excitable tissues []. Alpha conotoxins have two types of cysteine arrangements [], and are competitive nicotinic acetylcholine receptor antagonists. ; GO: 0008200 ion channel inhibitor activity, 0009405 pathogenesis, 0005576 extracellular region; PDB: 2EFZ_A 1FYG_A 1RMK_A 1DG0_A 1DFY_A 1DFZ_A 2JQC_A 2YYF_A 2JQB_A 1F3K_A ....
Probab=33.36 E-value=37 Score=21.50 Aligned_cols=14 Identities=29% Similarity=0.707 Sum_probs=5.5
Q ss_pred CCCCee--ecCCceee
Q 033540 77 GAKGLC--LPSPCCYA 90 (117)
Q Consensus 77 ~a~~~C--~~t~CCY~ 90 (117)
+..+.| .+.+||..
T Consensus 52 ~~g~~C~~~~~~CC~~ 67 (75)
T PF02950_consen 52 PPGSYCCKRNSECCSG 67 (75)
T ss_dssp -TTSB-BTTTTCBSSS
T ss_pred CCCCcCCCCCCCCCCC
Confidence 333444 44445544
No 10
>KOG4623 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.57 E-value=20 Score=33.35 Aligned_cols=35 Identities=23% Similarity=0.401 Sum_probs=29.8
Q ss_pred cccccceechhHHHHHHhHHHHhccC-Ccccccccc
Q 033540 39 SKSEEMVPLMEIKTVMMMNETRRKLN-SFQICAVCT 73 (117)
Q Consensus 39 ~~~~~mvPv~~~~~~~~~ne~rr~lg-~Fq~C~~Ct 73 (117)
.+..++-|..|.++...+++-|.+|+ -|++|+.|.
T Consensus 116 ~kLA~FeP~de~rydeeLevYR~~LE~mf~LCs~C~ 151 (611)
T KOG4623|consen 116 RKLADFEPPDEQRYDEELEVYRKSLEEMFPLCSECY 151 (611)
T ss_pred HHHhhcCCCchhhHHHHHHHHHHHHHHHcccchHHH
Confidence 44567889888889999999999999 899999985
No 11
>PF10960 DUF2762: Protein of unknown function (DUF2762); InterPro: IPR024405 BhlA is a SP-beta prophage-derived protein found in Bacillus subtilis [, ] and other Bacilli. A related protein, UviB, has also been described in Clostridia, where it is believed to be involved in bacteriocin secretion or immunity [, ].
Probab=24.12 E-value=42 Score=22.87 Aligned_cols=18 Identities=33% Similarity=0.632 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHhhccCCc
Q 033540 7 SFSLLFLLILANVISPNE 24 (117)
Q Consensus 7 ~~~~~fl~~~a~v~~~~e 24 (117)
+|.+||+.||..|+-.|+
T Consensus 14 ~fA~LFv~Ll~yvlK~~~ 31 (71)
T PF10960_consen 14 IFAVLFVWLLFYVLKENK 31 (71)
T ss_pred cHHHHHHHHHHHHHHHhH
Confidence 458889999998777655
No 12
>PF11674 DUF3270: Protein of unknown function (DUF3270); InterPro: IPR021688 This family of proteins with unknown function appears to be restricted to Streptococcus.
Probab=21.66 E-value=62 Score=23.19 Aligned_cols=17 Identities=35% Similarity=0.507 Sum_probs=11.6
Q ss_pred hHHHHHHHHH-HHhhccC
Q 033540 6 VSFSLLFLLI-LANVISP 22 (117)
Q Consensus 6 ~~~~~~fl~~-~a~v~~~ 22 (117)
|.||++||.+ ++++++-
T Consensus 53 vlfsFvfLs~kl~t~~Af 70 (90)
T PF11674_consen 53 VLFSFVFLSLKLNTFWAF 70 (90)
T ss_pred HHHHHHHHHHhhhHHHHH
Confidence 5677888887 6666543
No 13
>PF06783 UPF0239: Uncharacterised protein family (UPF0239); InterPro: IPR009621 This is a group of transmembrane proteins of unknown function.; GO: 0016021 integral to membrane
Probab=21.49 E-value=96 Score=22.34 Aligned_cols=19 Identities=32% Similarity=0.616 Sum_probs=12.8
Q ss_pred chhHHHHHH--HHHHHhhccC
Q 033540 4 YGVSFSLLF--LLILANVISP 22 (117)
Q Consensus 4 ~~~~~~~~f--l~~~a~v~~~ 22 (117)
||+.|--|| +-|||-|+..
T Consensus 24 YGLf~GAIFQliCilAiI~~~ 44 (85)
T PF06783_consen 24 YGLFVGAIFQLICILAIILPI 44 (85)
T ss_pred HHHHHHHHHHHHHHHheeeec
Confidence 787775544 5577877765
No 14
>PF09451 ATG27: Autophagy-related protein 27; InterPro: IPR018939 Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. There are more than 25 AuTophaGy-related (ATG) genes that are essential for autophagy, although it is still not known how the autophagosome is made. Atg9 is a potential membrane carrier to deliver lipids that are used to form the vesicle. Atg27 is another transmembrane protein, and is a cycling protein []. It acts as an effector of VPS34 phosphatidylinositol 3-phosphate kinase signalling and regulates the cytoplasm to vacuole transport (Cvt) vesicle formation. It is also required for autophagy-dependent cycling of ATG9.
Probab=21.41 E-value=1.7e+02 Score=23.30 Aligned_cols=55 Identities=22% Similarity=0.313 Sum_probs=26.3
Q ss_pred hHHHHHHHHHHHhhccCCccchhhhccCCCccccccccceechhH-H--HHHHhHHHHhccCCcc
Q 033540 6 VSFSLLFLLILANVISPNESSKINQANGSLSLESKSEEMVPLMEI-K--TVMMMNETRRKLNSFQ 67 (117)
Q Consensus 6 ~~~~~~fl~~~a~v~~~~e~s~~~qangs~~~e~~~~~mvPv~~~-~--~~~~~ne~rr~lg~Fq 67 (117)
.+|.++||.+++-+|.. +-.+....|.. -+||+|=.+. + ...+-.-.|+-++.+|
T Consensus 205 wl~i~~~l~~~~Y~i~g--~~~n~~~~g~~-----g~e~iP~~dfw~~lP~l~kd~~~~v~~~~~ 262 (268)
T PF09451_consen 205 WLFIILFLFLAAYLIFG--SWYNYNRYGAR-----GFELIPHFDFWRSLPYLIKDGVRFVVGTVQ 262 (268)
T ss_pred HHHHHHHHHHHHHhhhh--hheeeccCCCC-----CceecccHhHHHhchHHHHHHHHHhhcccc
Confidence 44555666665555544 11112222222 1268887653 2 3445555566555554
Done!