Query psy17942
Match_columns 90
No_of_seqs 106 out of 363
Neff 5.1
Searched_HMMs 46136
Date Fri Aug 16 18:16:15 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17942.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17942hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00926 Cyt_c_Oxidase_VIb Cyto 100.0 1E-31 2.3E-36 172.2 6.1 63 1-63 12-74 (75)
2 KOG3057|consensus 100.0 1.6E-30 3.5E-35 177.3 4.9 65 1-65 47-111 (112)
3 PF02297 COX6B: Cytochrome oxi 100.0 8.3E-29 1.8E-33 157.9 5.0 65 1-65 1-74 (76)
4 KOG4618|consensus 94.7 0.087 1.9E-06 33.9 4.7 47 10-57 22-68 (74)
5 PF06747 CHCH: CHCH domain; I 93.3 0.11 2.5E-06 27.6 2.8 31 12-42 1-31 (35)
6 PF08991 DUF1903: Domain of un 67.6 4.6 0.0001 25.2 1.9 38 12-50 4-41 (67)
7 KOG3458|consensus 59.6 7.9 0.00017 28.3 2.2 39 9-47 75-114 (170)
8 PF05676 NDUF_B7: NADH-ubiquin 54.9 15 0.00033 22.9 2.6 38 6-44 16-53 (66)
9 PF08583 Cmc1: Cytochrome c ox 48.4 55 0.0012 19.2 4.8 42 6-48 7-49 (69)
10 KOG4695|consensus 42.9 83 0.0018 22.0 5.0 52 10-65 46-97 (122)
11 PF10203 Pet191_N: Cytochrome 41.0 48 0.001 20.6 3.3 39 10-49 3-59 (68)
12 PF09717 CPW_WPC: Plasmodium f 28.5 12 0.00027 22.2 -0.8 12 38-49 3-14 (60)
13 COG3825 Uncharacterized protei 27.6 64 0.0014 26.5 2.8 45 43-87 79-130 (393)
14 TIGR01492 CPW_WPC Plasmodium f 27.6 9.1 0.0002 23.1 -1.6 13 38-50 4-16 (62)
15 PF15199 DAOA: D-amino acid ox 26.7 41 0.00089 21.6 1.3 16 36-53 3-18 (82)
16 PF10762 DUF2583: Protein of u 26.6 35 0.00076 22.7 1.0 8 48-55 75-82 (89)
17 PF10200 Ndufs5: NADH:ubiquino 26.1 41 0.00088 22.5 1.3 20 7-26 51-70 (96)
18 KOG4090|consensus 26.0 98 0.0021 22.6 3.3 39 9-48 115-153 (157)
19 KOG4624|consensus 24.0 2E+02 0.0042 19.7 4.3 43 6-49 27-70 (104)
20 PTZ00444 hypothetical protein; 22.4 11 0.00025 28.0 -2.1 22 30-51 89-112 (184)
21 PLN03155 cytochrome c oxidase 22.4 70 0.0015 20.0 1.7 23 50-72 37-59 (63)
22 PF11326 DUF3128: Protein of u 21.8 1.1E+02 0.0024 19.2 2.7 36 9-45 4-47 (84)
23 PF03472 Autoind_bind: Autoind 21.2 65 0.0014 20.5 1.5 17 42-58 40-56 (149)
24 PF08057 Ery_res_leader2: Eryt 20.2 25 0.00055 15.7 -0.4 7 2-8 8-14 (14)
No 1
>cd00926 Cyt_c_Oxidase_VIb Cytochrome c oxidase subunit VIb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit VIb is one of three mammalian subunits that lacks a transmembrane region. It is located on the cytosolic side of the membrane and helps form the dimer interface with the corresponding subunit on the other monomer complex.
Probab=99.97 E-value=1e-31 Score=172.16 Aligned_cols=63 Identities=27% Similarity=0.739 Sum_probs=61.8
Q ss_pred CCCCChHHHHHHHHHhHHHHHHHhhcCCCccchHHHHHHHHhhCHHHHHHHHHHHHhhhhhHH
Q psy17942 1 MSFLPKEERTKCWSARDKYWECLDSHEGNADSCKEFRTSYEQFCPGQWVKHFDRRYHFLKFKN 63 (90)
Q Consensus 1 mrfP~~nqrk~Cw~ard~y~~Cl~~~~~~~~~C~~~r~~fes~CP~sWV~~fdekR~~~~f~~ 63 (90)
||||++|||++||++||+||+||+++|++.+.|+.+++.|+++||.+||++|+++|++|+|+.
T Consensus 12 ~RfP~~nq~k~Cw~~y~~y~~Cl~~~ged~~~C~~~~~~~es~Cp~~Wve~w~ekR~~g~f~~ 74 (75)
T cd00926 12 PRFPNQNQTKHCWQRYVDYHRCIKAKGEDASPCKKFRRVYESLCPQEWLEKWDEQREEGTFPG 74 (75)
T ss_pred CCCCChHHHHHHHHHHHHHHHHHHHcCCchHHHHHHHHHHHHhCcHHHHHHHHHHHHhCCCCC
Confidence 899999999999999999999999999999999999999999999999999999999999985
No 2
>KOG3057|consensus
Probab=99.96 E-value=1.6e-30 Score=177.34 Aligned_cols=65 Identities=26% Similarity=0.708 Sum_probs=63.6
Q ss_pred CCCCChHHHHHHHHHhHHHHHHHhhcCCCccchHHHHHHHHhhCHHHHHHHHHHHHhhhhhHHHH
Q psy17942 1 MSFLPKEERTKCWSARDKYWECLDSHEGNADSCKEFRTSYEQFCPGQWVKHFDRRYHFLKFKNKI 65 (90)
Q Consensus 1 mrfP~~nqrk~Cw~ard~y~~Cl~~~~~~~~~C~~~r~~fes~CP~sWV~~fdekR~~~~f~~kl 65 (90)
||||++|||+|||++|+|||+|++++|+|...|+.|++.|+|+||.+||++|||+|++|+|+++|
T Consensus 47 ~RFP~~nqtrhCf~~y~dyhrC~~~~geD~~~Ck~f~~~y~SlCP~~WV~kWdeqre~G~Fpg~~ 111 (112)
T KOG3057|consen 47 ARFPNTNQTRHCFQRYVDYHRCIKAKGEDANPCKKFQKVYRSLCPGEWVEKWDEQRENGTFPGPI 111 (112)
T ss_pred ccCCCcchhHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHhCcHHHHHHHHHhhhcCCCCCCC
Confidence 79999999999999999999999999999999999999999999999999999999999999765
No 3
>PF02297 COX6B: Cytochrome oxidase c subunit VIb; InterPro: IPR003213 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex that is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptide subunits. One of these subunits is the potentially haem-binding subunit, VIb, which is encoded in the nucleus []. ; GO: 0004129 cytochrome-c oxidase activity, 0005739 mitochondrion; PDB: 1OCC_U 1OCR_U 2DYS_H 3ASO_H 3AG3_U 2EIL_H 2EIJ_U 3AG2_U 3ABM_U 2EIN_U ....
Probab=99.95 E-value=8.3e-29 Score=157.92 Aligned_cols=65 Identities=40% Similarity=0.888 Sum_probs=53.2
Q ss_pred CCCCChHHHHHHHHHhHHHHHHHhhcCC---------CccchHHHHHHHHhhCHHHHHHHHHHHHhhhhhHHHH
Q psy17942 1 MSFLPKEERTKCWSARDKYWECLDSHEG---------NADSCKEFRTSYEQFCPGQWVKHFDRRYHFLKFKNKI 65 (90)
Q Consensus 1 mrfP~~nqrk~Cw~ard~y~~Cl~~~~~---------~~~~C~~~r~~fes~CP~sWV~~fdekR~~~~f~~kl 65 (90)
.|||++++|++||++||+||+||+.++. +.+.|..+++.|+++||.|||+||+++|+++++.+.|
T Consensus 1 ~rfP~~~~r~~Cw~arD~y~~Cl~~~~~~~~~~~~~~~~~~C~~~~~~ye~~Cp~sWv~~f~~~R~~~~~k~~~ 74 (76)
T PF02297_consen 1 PRFPNRNQRKKCWQARDDYFKCLDKNGEPDSEKEKKKDESACKYFRKNYESNCPSSWVKYFDEKRVYDQRKEGT 74 (76)
T ss_dssp -TS-SSB-HHHHHHHHHHHHHHHHHHHH------TTTTGGGGHHHHHHHHHHS-HHHHHHHHHH-----HHHT-
T ss_pred CCCCChHHHHHHHHHHHHHHHHHHHcCccccccccccchhhhHHHHHHHHHhCcHHHHHHHHHHhhHHHHHhhc
Confidence 3899999999999999999999999988 8999999999999999999999999999999888765
No 4
>KOG4618|consensus
Probab=94.74 E-value=0.087 Score=33.89 Aligned_cols=47 Identities=17% Similarity=0.484 Sum_probs=41.9
Q ss_pred HHHHHHhHHHHHHHhhcCCCccchHHHHHHHHhhCHHHHHHHHHHHHh
Q psy17942 10 TKCWSARDKYWECLDSHEGNADSCKEFRTSYEQFCPGQWVKHFDRRYH 57 (90)
Q Consensus 10 k~Cw~ard~y~~Cl~~~~~~~~~C~~~r~~fes~CP~sWV~~fdekR~ 57 (90)
.-|....+.=|+||+.++-+.+.|..+...|. .|-..|-+-=-++|.
T Consensus 22 nPCl~es~aSfkCLeennyDRsKCq~yFd~Yk-eCKkfwn~ar~errk 68 (74)
T KOG4618|consen 22 NPCLLESSASFKCLEENNYDRSKCQDYFDVYK-ECKKFWNEARLERRK 68 (74)
T ss_pred ChHHHHHHHHHHHHHhcCccHHHHHHHHHHHH-HHHHHHHHHHHHHhh
Confidence 35999999999999999999999999999998 899999887666665
No 5
>PF06747 CHCH: CHCH domain; InterPro: IPR010625 A conserved motif was identified in the LOC118487 protein was called the CHCH motif. Alignment of this protein with related members showed the presence of three subgroups of proteins, which are called the S (Small), N (N-terminal extended) and C (C-terminal extended) subgroups. All three sub-groups of proteins have in common that they contain a predicted conserved [coiled coil 1]-[helix 1]-[coiled coil 2]-[helix 2] domain (CHCH domain). Within each helix of the CHCH domain, there are two cysteines present in a C-X9-C motif. The N-group contains an additional double helix domain, and each helix contains the C-X9-C motif. This family contains a number of characterised proteins: Cox19 protein - a nuclear gene of Saccharomyces cerevisiae, codes for an 11 kDa protein (Cox19p) required for expression of cytochrome oxidase. Because cox19 mutants are able to synthesise the mitochondrial and nuclear gene products of cytochrome oxidase, Cox19p probably functions post-translationally during assembly of the enzyme. Cox19p is present in the cytoplasm and mitochondria, where it exists as a soluble intermembrane protein. This dual location is similar to what was previously reported for Cox17p, a low molecular weight copper protein thought to be required for maturation of the CuA centre of subunit 2 of cytochrome oxidase. Cox19p have four conserved potential metal ligands, these are three cysteines and one histidine. Mrp10 - belongs to the class of yeast mitochondrial ribosomal proteins that are essential for translation []. Eukaryotic NADH-ubiquinone oxidoreductase 19 kDa (NDUFA8) subunit []. The CHCH domain was previously called DUF657 []. ; PDB: 2ZXT_A 3A3C_A 2L0Y_A 2K3J_A.
Probab=93.32 E-value=0.11 Score=27.62 Aligned_cols=31 Identities=19% Similarity=0.497 Sum_probs=25.7
Q ss_pred HHHHhHHHHHHHhhcCCCccchHHHHHHHHh
Q psy17942 12 CWSARDKYWECLDSHEGNADSCKEFRTSYEQ 42 (90)
Q Consensus 12 Cw~ard~y~~Cl~~~~~~~~~C~~~r~~fes 42 (90)
|-.-..+|+.|++.++.+...|..+.+.|..
T Consensus 1 C~~e~~~~~~Cl~~n~~~~~~C~~~~~~~~~ 31 (35)
T PF06747_consen 1 CAEEMKAYLACLKENNFDWSKCRKEFKAYKE 31 (35)
T ss_dssp THHHHHHHHHHHHCH-SSTCCCHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCCCcHHhhHHHHHHHHH
Confidence 3345678999999999999999999999985
No 6
>PF08991 DUF1903: Domain of unknown function (DUF1903); InterPro: IPR009069 The mature-T-cell-proliferation (MTCP1) putative oncogene was identified for its involvement in t(X:14)(q28;q11)-associated T-cell leukaemia []. MTCP1 is alternatively spliced to produce two completely distinct proteins: the small mitochondrial protein, p8MTCP1, and the protein p13MTCP1, which shows strong homology to another oncogene product, p14TCL1. While p13MTCP1 expression appears to be restricted to mature T-cell proliferation with t(X,14) translocations, the mitochondrial p8MTCP1 is expressed at low levels in most human tissues, and is over-expressed in the proliferating T-cells. The biological function of p8MTCP1 is still unknown, but it appears to play a role in oncogenesis. The structure of p8MTCP1 reveals a disulphide-rich, irregular array of three helices [].; PDB: 2HP8_A 1EI0_A 1HP8_A.
Probab=67.64 E-value=4.6 Score=25.24 Aligned_cols=38 Identities=13% Similarity=0.396 Sum_probs=28.2
Q ss_pred HHHHhHHHHHHHhhcCCCccchHHHHHHHHhhCHHHHHH
Q psy17942 12 CWSARDKYWECLDSHEGNADSCKEFRTSYEQFCPGQWVK 50 (90)
Q Consensus 12 Cw~ard~y~~Cl~~~~~~~~~C~~~r~~fes~CP~sWV~ 50 (90)
|-..-..-..||..|+-+.+.|..+-..|. .|-.+|.+
T Consensus 4 C~~~Ac~iq~CL~~N~Yd~~kC~~~i~~l~-~Cck~~y~ 41 (67)
T PF08991_consen 4 CQKEACAIQKCLQRNNYDESKCQDYIDALY-ECCKKFYE 41 (67)
T ss_dssp THHHHHHHHHHHHHTTT-CCCTHHHHHHHH-HHHTTS--
T ss_pred hHHHHHHHHHHHHHcCCCHHHHHHHHHHHH-HHHHHHHH
Confidence 334445778999999999999999999998 56666654
No 7
>KOG3458|consensus
Probab=59.61 E-value=7.9 Score=28.34 Aligned_cols=39 Identities=18% Similarity=0.560 Sum_probs=34.2
Q ss_pred HHHHHHHhHHHHHHHhhc-CCCccchHHHHHHHHhhCHHH
Q psy17942 9 RTKCWSARDKYWECLDSH-EGNADSCKEFRTSYEQFCPGQ 47 (90)
Q Consensus 9 rk~Cw~ard~y~~Cl~~~-~~~~~~C~~~r~~fes~CP~s 47 (90)
-++|-.-.++|..|++.. ....+.|.+.+..|+.-||.-
T Consensus 75 kr~C~~e~~~y~~C~dysst~~f~~Crk~Q~~fdkcv~~k 114 (170)
T KOG3458|consen 75 KRSCLEEFTKYATCMDYSSTNEFSHCRKEQEAFDKCVPDK 114 (170)
T ss_pred HHHhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhHhh
Confidence 578999999999999988 456789999999999999863
No 8
>PF05676 NDUF_B7: NADH-ubiquinone oxidoreductase B18 subunit (NDUFB7); InterPro: IPR008698 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This family consists of several NADH-ubiquinone oxidoreductase B18 subunit proteins from different eukaryotic organisms. Oxidative phosphorylation is the well-characterised process in which ATP, the principal carrier of chemical energy of individual cells, is produced due to a mitochondrial proton gradient formed by the transfer of electrons from NADH and FADH2 to molecular oxygen. The oxidative phosphorylation (OXPHOS) system is located in the mitochondrial inner membrane and consists of five multi-subunit enzyme complexes and two small electron carriers: coenzyme Q10 and cytochrome C. At least 70 structural proteins involved in the formation of the whole OXPHOS system are encoded by nuclear genes, whereas 13 structural proteins are encoded by the mitochondrial genome. Deficiency of NADH ubiquinone oxidoreductase, the first enzyme complex of the mitochondrial respiratory chain, is one of the most frequent causes of Homo sapiens mitochondrial encephalomyopathies [].; GO: 0003954 NADH dehydrogenase activity, 0008137 NADH dehydrogenase (ubiquinone) activity, 0005739 mitochondrion
Probab=54.90 E-value=15 Score=22.92 Aligned_cols=38 Identities=21% Similarity=0.245 Sum_probs=33.2
Q ss_pred hHHHHHHHHHhHHHHHHHhhcCCCccchHHHHHHHHhhC
Q psy17942 6 KEERTKCWSARDKYWECLDSHEGNADSCKEFRTSYEQFC 44 (90)
Q Consensus 6 ~nqrk~Cw~ard~y~~Cl~~~~~~~~~C~~~r~~fes~C 44 (90)
...|-.|--....|.+|...+-...-.|..++..|+ .|
T Consensus 16 l~~RDyCAh~Li~l~kCrr~~~p~~~~C~~erH~y~-~C 53 (66)
T PF05676_consen 16 LQYRDYCAHLLIPLNKCRRDNFPFPWKCEHERHEYE-KC 53 (66)
T ss_pred hhhhhhHHHHHHHHHHHHHhCCCCcccCCcchhhHH-Hc
Confidence 357889999999999999999777789999999998 44
No 9
>PF08583 Cmc1: Cytochrome c oxidase biogenesis protein Cmc1 like; InterPro: IPR013892 Cmc1 is a metallo-chaperone like protein which is known to localise to the inner mitochondrial membrane in Saccharomyces cerevisiae. It is essential for full expression of cytochrome c oxidase and respiration []. Cmc1 contains two Cx9C motifs and is able to bind copper(I). Cmc1 is thought to play a role in mitochondrial copper trafficking and transfer to cytochrome c oxidase.
Probab=48.40 E-value=55 Score=19.18 Aligned_cols=42 Identities=19% Similarity=0.393 Sum_probs=34.4
Q ss_pred hHHHHHHHHHhHHHHHHHhhcC-CCccchHHHHHHHHhhCHHHH
Q psy17942 6 KEERTKCWSARDKYWECLDSHE-GNADSCKEFRTSYEQFCPGQW 48 (90)
Q Consensus 6 ~nqrk~Cw~ard~y~~Cl~~~~-~~~~~C~~~r~~fes~CP~sW 48 (90)
...+..|...-++|..|....+ .....|......+. .|...+
T Consensus 7 ~~~~~~C~~~i~~~~~C~~~~~~~~~~~C~~~~~~m~-~Cl~~~ 49 (69)
T PF08583_consen 7 EEAHKKCADEIEAFAECHKDRTFKFVGKCREEKKAMN-ECLKEE 49 (69)
T ss_pred HHHHHHhHHHHHHHHHHHhcchHHHHHhhhHHHHHHH-HHHHHH
Confidence 3456899999999999999743 45678999999887 788877
No 10
>KOG4695|consensus
Probab=42.85 E-value=83 Score=21.97 Aligned_cols=52 Identities=13% Similarity=0.360 Sum_probs=39.6
Q ss_pred HHHHHHhHHHHHHHhhcCCCccchHHHHHHHHhhCHHHHHHHHHHHHhhhhhHHHH
Q psy17942 10 TKCWSARDKYWECLDSHEGNADSCKEFRTSYEQFCPGQWVKHFDRRYHFLKFKNKI 65 (90)
Q Consensus 10 k~Cw~ard~y~~Cl~~~~~~~~~C~~~r~~fes~CP~sWV~~fdekR~~~~f~~kl 65 (90)
-.|-+---..|.||+.+.=+...|.++-..|. .|.. .|=+|.|.+-...+.|
T Consensus 46 ~tC~qEm~vlfaClK~nEF~d~~C~Kei~~f~-dC~~---~ya~ea~~~r~~~gtl 97 (122)
T KOG4695|consen 46 ATCIQEMSVLFACLKQNEFRDDACRKEIQGFL-DCAA---RYAQEARKMRSIQETL 97 (122)
T ss_pred hHHHHHHHHHHHHHHhccccchHHHHHHHHHH-HHHH---HHHHHHHHHHHhHhhh
Confidence 46888888899999999989999999999998 6765 3455666654433333
No 11
>PF10203 Pet191_N: Cytochrome c oxidase assembly protein PET191; InterPro: IPR018793 This entry represents a family of conserved proteins found from nematodes to humans. Cytochrome c oxidase assembly protein Pet191 carries six highly conserved cysteine residues. Pet191 is required for the assembly of active cytochrome c oxidase but does not form part of the final assembled complex [].
Probab=40.95 E-value=48 Score=20.60 Aligned_cols=39 Identities=21% Similarity=0.538 Sum_probs=25.4
Q ss_pred HHHHHHhHHHHHHHhhc------------------CCCccchHHHHHHHHhhCHHHHH
Q psy17942 10 TKCWSARDKYWECLDSH------------------EGNADSCKEFRTSYEQFCPGQWV 49 (90)
Q Consensus 10 k~Cw~ard~y~~Cl~~~------------------~~~~~~C~~~r~~fes~CP~sWV 49 (90)
+.|+..+.++-.||... .+.+..|..++..|- .|-.+.|
T Consensus 3 ~sC~~~~~~L~~Cl~~SdCv~~~~~t~~~Cl~~~~~~~p~eC~~lr~~f~-eCKrg~l 59 (68)
T PF10203_consen 3 KSCKGIREALAECLQESDCVKKEKRTPKDCLKDPSDELPEECQQLRKAFF-ECKRGML 59 (68)
T ss_pred chHHHHHHHHHHHHhhChhhccCCCCHHHHHcCCCCcCCHHHHHHHHHHH-HHhcccc
Confidence 35777777777776654 345667777777776 5555554
No 12
>PF09717 CPW_WPC: Plasmodium falciparum domain of unknown function (CPW_WPC); InterPro: IPR006387 This entry represents a domain of about 61 residues in length with six well-conserved cysteine residues and six well-conserved aromatic sites. The domain can be found in tandem repeats. It is named for motifs of CPxxW and (less well conserved) WPC. Its function is unknown.
Probab=28.46 E-value=12 Score=22.15 Aligned_cols=12 Identities=42% Similarity=1.160 Sum_probs=10.2
Q ss_pred HHHHhhCHHHHH
Q psy17942 38 TSYEQFCPGQWV 49 (90)
Q Consensus 38 ~~fes~CP~sWV 49 (90)
+.|...||..|+
T Consensus 3 rdys~~CP~~W~ 14 (60)
T PF09717_consen 3 RDYSQPCPEGWI 14 (60)
T ss_pred Cccccccccccc
Confidence 458889999999
No 13
>COG3825 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.57 E-value=64 Score=26.47 Aligned_cols=45 Identities=24% Similarity=0.375 Sum_probs=32.3
Q ss_pred hCHHHHHHHHHHHHhhhhhHHHHHh-cCccccCcc------ccccCCCCCCc
Q psy17942 43 FCPGQWVKHFDRRYHFLKFKNKIET-EGFEKFDSK------QEYELPKGKSK 87 (90)
Q Consensus 43 ~CP~sWV~~fdekR~~~~f~~kl~~-eg~~~~~~~------~~~~~~~~~~~ 87 (90)
.=|..|...--++.-.+..++++++ .|+.++.++ +++.-|+||+|
T Consensus 79 ~ip~ewl~~~~er~ltdeekaq~eAlggi~kl~Etl~e~leeq~~rh~gg~k 130 (393)
T COG3825 79 KIPEEWLRKIFERVLTDEEKAQVEALGGIDKLMETLKERLEEQKERHEGGSK 130 (393)
T ss_pred cChHHHHHHHHHHhcCHHHHHHHHHhcCcchhHHHHHHhHHHhhcCCCCCcc
Confidence 4467788777777777788888886 566666554 66777888876
No 14
>TIGR01492 CPW_WPC Plasmodium falciparum CPW-WPC domain. This model represents a domain of about 61 residues in length with six well-conserved cysteine residues and six well-conserved aromatic sites. The domain can be found in tandem repeats, and is known so far only in Plasmodium falciparum. It is named for motifs of CPxxW and (less well conserved) WPC.
Probab=27.56 E-value=9.1 Score=23.07 Aligned_cols=13 Identities=31% Similarity=1.101 Sum_probs=10.7
Q ss_pred HHHHhhCHHHHHH
Q psy17942 38 TSYEQFCPGQWVK 50 (90)
Q Consensus 38 ~~fes~CP~sWV~ 50 (90)
+.|.+.||..|+.
T Consensus 4 rdYs~~CP~~W~~ 16 (62)
T TIGR01492 4 ENYSSPCPENWIQ 16 (62)
T ss_pred cccCccCCcccee
Confidence 4678899999985
No 15
>PF15199 DAOA: D-amino acid oxidase activator
Probab=26.70 E-value=41 Score=21.60 Aligned_cols=16 Identities=31% Similarity=0.760 Sum_probs=11.6
Q ss_pred HHHHHHhhCHHHHHHHHH
Q psy17942 36 FRTSYEQFCPGQWVKHFD 53 (90)
Q Consensus 36 ~r~~fes~CP~sWV~~fd 53 (90)
.|..-+|+|| ||.|.-
T Consensus 3 qrhlqrslcp--wvsylp 18 (82)
T PF15199_consen 3 QRHLQRSLCP--WVSYLP 18 (82)
T ss_pred HHHHHHhhcc--hhhhCC
Confidence 3556678998 998754
No 16
>PF10762 DUF2583: Protein of unknown function (DUF2583) ; InterPro: IPR019698 Some members in this entry are annotated as YchH however currently no function is known.
Probab=26.58 E-value=35 Score=22.69 Aligned_cols=8 Identities=88% Similarity=1.909 Sum_probs=6.9
Q ss_pred HHHHHHHH
Q psy17942 48 WVKHFDRR 55 (90)
Q Consensus 48 WV~~fdek 55 (90)
||+|||++
T Consensus 75 Wvkh~DkR 82 (89)
T PF10762_consen 75 WVKHFDKR 82 (89)
T ss_pred HHHhhhHh
Confidence 99999865
No 17
>PF10200 Ndufs5: NADH:ubiquinone oxidoreductase, NDUFS5-15kDa; InterPro: IPR019342 Proteins in this entry form part of the NADH:ubiquinone oxidoreductase complex I. Complex I is the first multisubunit inner membrane protein complex of the mitochondrial electron transport chain and it transfers two electrons from NADH to ubiquinone. The mammalian complex I is composed of 45 different subunits. The proteins in this entry represent a component of the iron-sulphur (IP) fragment of the enzyme, that is not involved in catalysis. These proteins carry four highly conserved cysteine residues, but these do not appear to be in a configuration which would favour metal binding, so the exact function of the protein is uncertain [].
Probab=26.08 E-value=41 Score=22.52 Aligned_cols=20 Identities=25% Similarity=0.690 Sum_probs=13.4
Q ss_pred HHHHHHHHHhHHHHHHHhhc
Q psy17942 7 EERTKCWSARDKYWECLDSH 26 (90)
Q Consensus 7 nqrk~Cw~ard~y~~Cl~~~ 26 (90)
...+.|=-.++||+.||...
T Consensus 51 r~kKeC~~e~EDy~EClh~~ 70 (96)
T PF10200_consen 51 RGKKECKLELEDYYECLHHT 70 (96)
T ss_pred chhhhchhHHhHHHHHHhhH
Confidence 34567777777777777643
No 18
>KOG4090|consensus
Probab=25.99 E-value=98 Score=22.56 Aligned_cols=39 Identities=10% Similarity=0.473 Sum_probs=31.0
Q ss_pred HHHHHHHhHHHHHHHhhcCCCccchHHHHHHHHhhCHHHH
Q psy17942 9 RTKCWSARDKYWECLDSHEGNADSCKEFRTSYEQFCPGQW 48 (90)
Q Consensus 9 rk~Cw~ard~y~~Cl~~~~~~~~~C~~~r~~fes~CP~sW 48 (90)
-..|.----.|-.|+..++.+-+.|..|...+. -|-..|
T Consensus 115 ~~~C~~e~kqF~dCa~~~~~d~slC~~f~e~Lk-~Ck~~~ 153 (157)
T KOG4090|consen 115 QQPCFIEIKQFLDCAQNQGSDISLCEGYNEMLK-QCKKNS 153 (157)
T ss_pred cCchHHHHHHHHHHHHhcCcchHHHHHHHHHHH-HHHHHh
Confidence 345777777899999999999999999988775 555444
No 19
>KOG4624|consensus
Probab=24.03 E-value=2e+02 Score=19.68 Aligned_cols=43 Identities=16% Similarity=0.383 Sum_probs=36.0
Q ss_pred hHHHHHHHHHhHHHHHHHhhcCC-CccchHHHHHHHHhhCHHHHH
Q psy17942 6 KEERTKCWSARDKYWECLDSHEG-NADSCKEFRTSYEQFCPGQWV 49 (90)
Q Consensus 6 ~nqrk~Cw~ard~y~~Cl~~~~~-~~~~C~~~r~~fes~CP~sWV 49 (90)
+..|..|-+...+|-.|...++- ....|.+....+. .|...|.
T Consensus 27 kakt~~C~~~v~~~a~C~k~~~v~vv~TCrkq~~elk-~Cl~~~~ 70 (104)
T KOG4624|consen 27 KAKTEKCSEFVQDFADCAKASGVSVVPTCRKQNSELK-ECLTQYY 70 (104)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCeeeehhhHHHHHHHH-HHHHHHh
Confidence 56778999999999999998853 5667999999887 7888885
No 20
>PTZ00444 hypothetical protein; Provisional
Probab=22.40 E-value=11 Score=28.01 Aligned_cols=22 Identities=32% Similarity=0.857 Sum_probs=16.7
Q ss_pred ccchH--HHHHHHHhhCHHHHHHH
Q psy17942 30 ADSCK--EFRTSYEQFCPGQWVKH 51 (90)
Q Consensus 30 ~~~C~--~~r~~fes~CP~sWV~~ 51 (90)
...|. ..++.|...||..|++.
T Consensus 89 ~~~C~~p~~kRDYS~~CP~GW~k~ 112 (184)
T PTZ00444 89 HHSCGEPSYERDYSYPCPEGWTKN 112 (184)
T ss_pred cCcccCccccccCCCcCCccceec
Confidence 34454 47789999999999863
No 21
>PLN03155 cytochrome c oxidase subunit 5C; Provisional
Probab=22.36 E-value=70 Score=20.01 Aligned_cols=23 Identities=13% Similarity=0.265 Sum_probs=18.9
Q ss_pred HHHHHHHhhhhhHHHHHhcCccc
Q psy17942 50 KHFDRRYHFLKFKNKIETEGFEK 72 (90)
Q Consensus 50 ~~fdekR~~~~f~~kl~~eg~~~ 72 (90)
-||++||....|-+.|++..+.+
T Consensus 37 hHWn~qrkt~~fY~~LekgeisV 59 (63)
T PLN03155 37 HHWNEQRKTRSFYDLLEKGEISV 59 (63)
T ss_pred hhhhhHHHHHHHHHHHhcCceEE
Confidence 58999999999999998665543
No 22
>PF11326 DUF3128: Protein of unknown function (DUF3128); InterPro: IPR021475 This eukaryotic family of proteins has no known function.
Probab=21.79 E-value=1.1e+02 Score=19.18 Aligned_cols=36 Identities=28% Similarity=0.765 Sum_probs=26.8
Q ss_pred HHHHHHHhHHHHHHHhhc--------CCCccchHHHHHHHHhhCH
Q psy17942 9 RTKCWSARDKYWECLDSH--------EGNADSCKEFRTSYEQFCP 45 (90)
Q Consensus 9 rk~Cw~ard~y~~Cl~~~--------~~~~~~C~~~r~~fes~CP 45 (90)
+-.|..+.|+++.|.... -+....|......|. .|.
T Consensus 4 ~~sC~~~fd~~~~C~S~~~q~~~yYryG~~~~C~~~~~df~-~C~ 47 (84)
T PF11326_consen 4 TMSCMDAFDELWFCYSPGGQFRNYYRYGEFDDCSQWWEDFK-FCL 47 (84)
T ss_pred CccHHHHHHHHHHcCCchHhheeeeecCCCccHHHHHHHHH-HHH
Confidence 567999999999998765 234557887777776 554
No 23
>PF03472 Autoind_bind: Autoinducer binding domain; InterPro: IPR005143 This domain binds N-acyl homoserine lactones (AHLs), which are also known as autoinducers. These are small, diffusible molecules used as communication signals in a large variety of proteobacteria. It is almost always found in association with the DNA-binding LuxR domain (IPR000792 from INTERPRO). The autoinducer binding domain forms the N-terminal region of the protein, while the DNA-binding domain forms the C-terminal region. In most cases, binding of AHL by this N-terminal domain leads to unmasking of the DNA-binding domain, allowing it to bind DNA and activate transcription []. In rare cases, some LuxR proteins such as EsaR, act as repressors []. In these proteins binding of AHL to this domain leads to inactivation of the protein as a transcriptional regulator. A large number of processes have been shown to be regulated by LuxR proteins, including bioluminescence, production of virulence factors in plant and animal pathogens, antibiotic production and plasmid transfer. Structural studies of TraR from Agrobacterium tumefaciens [, ] show that the functional protein is a homodimer. Binding of the cognate AHL is required for protein folding, resistance to proteases and dimerisation. The autoinducer binding domain binds its cognate AHL in an alpha/beta/alpha sandwich and provides an extensive dimerisation surface, though residues from the C-terminal region also make some contribution to dimerisation. The autoinducer binding domain is also required for interaction with RpoA, allowing transcription to occur []. There are some proteins which consist solely of the autoinducer binding domain. The function of these is not known, but TrlR from Agrobacterium has been shown to inhibit the activity of TraR by the formation of inactive heterodimers [].; PDB: 3SZT_A 1H0M_A 1L3L_B 2Q0O_B 2UV0_F 3IX8_A 3IX4_C 3IX3_A 3JPU_D 3QP8_A ....
Probab=21.22 E-value=65 Score=20.53 Aligned_cols=17 Identities=29% Similarity=0.841 Sum_probs=13.4
Q ss_pred hhCHHHHHHHHHHHHhh
Q psy17942 42 QFCPGQWVKHFDRRYHF 58 (90)
Q Consensus 42 s~CP~sWV~~fdekR~~ 58 (90)
+.+|.+|+++|.++.-.
T Consensus 40 ~~~p~~w~~~Y~~~~~~ 56 (149)
T PF03472_consen 40 SNYPDEWLEHYEERGYF 56 (149)
T ss_dssp ESS-HHHHHHHHHTTGG
T ss_pred ecCCHHHHHHHHHcCCc
Confidence 47899999999988754
No 24
>PF08057 Ery_res_leader2: Erythromycin resistance leader peptide; InterPro: IPR012559 This family consists of erythromycin resistance gene leader peptides. These leader peptides are involved in the transcriptional attenuation control of the synthesis of the macrolide-lincosamide -streptogramin B resistance protein. It acts as a transcriptional attenuator, in contrast to other inducible erm genes. The mRNA leader sequence can fold in either of two mutually exclusive conformations, one of which is postulated to form in the absence of induction, and to contain two rho factor-independent terminators [].; GO: 0046677 response to antibiotic
Probab=20.16 E-value=25 Score=15.74 Aligned_cols=7 Identities=14% Similarity=0.244 Sum_probs=5.1
Q ss_pred CCCChHH
Q psy17942 2 SFLPKEE 8 (90)
Q Consensus 2 rfP~~nq 8 (90)
|||+-||
T Consensus 8 rfptlnq 14 (14)
T PF08057_consen 8 RFPTLNQ 14 (14)
T ss_pred eccccCC
Confidence 6888765
Done!