Query 035149
Match_columns 72
No_of_seqs 103 out of 256
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 09:36:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035149.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035149hhsearch_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 6.1E-36 1.3E-40 183.6 7.5 66 5-70 2-67 (75)
2 KOG3057 Cytochrome c oxidase, 100.0 4E-35 8.6E-40 191.6 6.8 65 5-69 37-101 (112)
3 PF02297 COX6B: Cytochrome oxi 99.9 6.9E-27 1.5E-31 142.6 4.4 55 15-69 1-64 (76)
4 KOG4618 Uncharacterized conser 95.0 0.04 8.6E-07 34.0 3.5 41 24-65 22-62 (74)
5 PF06747 CHCH: CHCH domain; I 94.2 0.05 1.1E-06 27.8 2.3 31 26-56 1-31 (35)
6 PF14345 GDYXXLXY: GDYXXLXY pr 76.7 1.2 2.5E-05 29.3 0.8 16 4-19 21-36 (144)
7 COG4929 Uncharacterized membra 68.1 2.1 4.5E-05 30.6 0.4 14 4-17 36-49 (190)
8 PF05676 NDUF_B7: NADH-ubiquin 60.7 9.8 0.00021 22.7 2.4 35 21-55 17-51 (66)
9 KOG4090 Uncharacterized conser 53.8 20 0.00044 24.9 3.3 37 22-59 114-150 (157)
10 PF08991 DUF1903: Domain of un 52.5 14 0.00031 22.0 2.1 32 30-62 8-39 (67)
11 KOG4624 Uncharacterized conser 46.6 51 0.0011 21.5 4.1 42 20-62 27-69 (104)
12 CHL00088 apcB allophycocyanin 37.8 52 0.0011 22.5 3.4 53 10-63 66-126 (161)
13 PF05240 APOBEC_C: APOBEC-like 37.6 18 0.00039 20.9 0.9 17 18-34 21-37 (55)
14 KOG4763 Ubiquinol-cytochrome c 36.9 31 0.00066 21.4 1.9 19 21-39 48-66 (77)
15 PF09717 CPW_WPC: Plasmodium f 36.3 7.4 0.00016 22.1 -0.9 12 52-63 3-14 (60)
16 PF08057 Ery_res_leader2: Eryt 36.0 8.6 0.00019 16.6 -0.5 12 11-22 3-14 (14)
17 TIGR01492 CPW_WPC Plasmodium f 34.1 5.9 0.00013 22.9 -1.6 14 52-65 4-17 (62)
18 PF10203 Pet191_N: Cytochrome 31.7 46 0.00099 19.8 2.0 32 30-62 26-58 (68)
19 KOG3458 NADH:ubiquinone oxidor 30.8 59 0.0013 22.8 2.7 39 23-61 75-114 (170)
20 PTZ00444 hypothetical protein; 29.8 6.1 0.00013 28.1 -2.3 21 45-65 90-112 (184)
21 TIGR01337 apcB allophycocyanin 23.0 2.6E+02 0.0056 19.2 5.5 55 8-63 64-126 (167)
22 PF10875 DUF2670: Protein of u 22.0 49 0.0011 22.5 1.0 22 21-42 66-94 (139)
23 COG5204 SPT4 Transcription elo 20.9 53 0.0011 21.5 1.0 11 59-69 62-72 (112)
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=100.00 E-value=6.1e-36 Score=183.64 Aligned_cols=66 Identities=45% Similarity=0.997 Sum_probs=63.4
Q ss_pred ccccccCCCCCCCCChHHHHHHHHHhHHHHHHHhhhCCCchhHHHHHHHHHhcChHHHHHhhhhhh
Q 035149 5 EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWVSILQFFE 70 (72)
Q Consensus 5 ~~~~~t~p~D~RfPn~nQ~k~Cw~~y~dy~rC~~~~Ged~~~C~~~~~~y~slCP~~Wv~~wd~k~ 70 (72)
...+.|+|+||||||+|||+|||++|++||+|++++|+|.++|+++++.|+|+||++||++||++-
T Consensus 2 ~~~~~t~~~D~RfP~~nq~k~Cw~~y~~y~~Cl~~~ged~~~C~~~~~~~es~Cp~~Wve~w~ekR 67 (75)
T cd00926 2 AGPLTTAPFDPRFPNQNQTKHCWQRYVDYHRCIKAKGEDASPCKKFRRVYESLCPQEWLEKWDEQR 67 (75)
T ss_pred CccccCCCCCCCCCChHHHHHHHHHHHHHHHHHHHcCCchHHHHHHHHHHHHhCcHHHHHHHHHHH
Confidence 356999999999999999999999999999999999999999999999999999999999999973
No 2
>KOG3057 consensus Cytochrome c oxidase, subunit VIb/COX12 [Energy production and conversion]
Probab=100.00 E-value=4e-35 Score=191.62 Aligned_cols=65 Identities=58% Similarity=1.161 Sum_probs=63.0
Q ss_pred ccccccCCCCCCCCChHHHHHHHHHhHHHHHHHhhhCCCchhHHHHHHHHHhcChHHHHHhhhhh
Q 035149 5 EIELKTAPADFRFPTTNQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWVSILQFF 69 (72)
Q Consensus 5 ~~~~~t~p~D~RfPn~nQ~k~Cw~~y~dy~rC~~~~Ged~~~C~~~~~~y~slCP~~Wv~~wd~k 69 (72)
...|.|||+|+||||+|||+|||++|+|||||++++|+|..+|++|++.|+|+||.+||++||++
T Consensus 37 ~~~l~tap~d~RFP~~nqtrhCf~~y~dyhrC~~~~geD~~~Ck~f~~~y~SlCP~~WV~kWdeq 101 (112)
T KOG3057|consen 37 SKLLTTAPVDARFPNTNQTRHCFQRYVDYHRCIKAKGEDANPCKKFQKVYRSLCPGEWVEKWDEQ 101 (112)
T ss_pred ccccccccccccCCCcchhHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHhCcHHHHHHHHHh
Confidence 35699999999999999999999999999999999999999999999999999999999999987
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=99.93 E-value=6.9e-27 Score=142.65 Aligned_cols=55 Identities=35% Similarity=0.809 Sum_probs=50.0
Q ss_pred CCCCChHHHHHHHHHhHHHHHHHhhhCC---------CchhHHHHHHHHHhcChHHHHHhhhhh
Q 035149 15 FRFPTTNQTRHCFTRYIEFHRCLAAKGE---------ESNECERFAKYYRSLCPGDWVSILQFF 69 (72)
Q Consensus 15 ~RfPn~nQ~k~Cw~~y~dy~rC~~~~Ge---------d~~~C~~~~~~y~slCP~~Wv~~wd~k 69 (72)
||||++|||++||++||+||+||+.+|+ +.+.|+.+++.|+++||.+||++|+++
T Consensus 1 ~rfP~~~~r~~Cw~arD~y~~Cl~~~~~~~~~~~~~~~~~~C~~~~~~ye~~Cp~sWv~~f~~~ 64 (76)
T PF02297_consen 1 PRFPNRNQRKKCWQARDDYFKCLDKNGEPDSEKEKKKDESACKYFRKNYESNCPSSWVKYFDEK 64 (76)
T ss_dssp -TS-SSB-HHHHHHHHHHHHHHHHHHHH------TTTTGGGGHHHHHHHHHHS-HHHHHHHHHH
T ss_pred CCCCChHHHHHHHHHHHHHHHHHHHcCccccccccccchhhhHHHHHHHHHhCcHHHHHHHHHH
Confidence 7999999999999999999999999998 899999999999999999999999987
No 4
>KOG4618 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.00 E-value=0.04 Score=33.98 Aligned_cols=41 Identities=17% Similarity=0.537 Sum_probs=37.5
Q ss_pred HHHHHHhHHHHHHHhhhCCCchhHHHHHHHHHhcChHHHHHh
Q 035149 24 RHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCPGDWVSI 65 (72)
Q Consensus 24 k~Cw~~y~dy~rC~~~~Ged~~~C~~~~~~y~slCP~~Wv~~ 65 (72)
.-|...+..=++||+++|-|-+.|+.++.+|+ .|-..|.+.
T Consensus 22 nPCl~es~aSfkCLeennyDRsKCq~yFd~Yk-eCKkfwn~a 62 (74)
T KOG4618|consen 22 NPCLLESSASFKCLEENNYDRSKCQDYFDVYK-ECKKFWNEA 62 (74)
T ss_pred ChHHHHHHHHHHHHHhcCccHHHHHHHHHHHH-HHHHHHHHH
Confidence 56999999999999999999999999999998 799988764
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=94.25 E-value=0.05 Score=27.82 Aligned_cols=31 Identities=19% Similarity=0.472 Sum_probs=25.9
Q ss_pred HHHHhHHHHHHHhhhCCCchhHHHHHHHHHh
Q 035149 26 CFTRYIEFHRCLAAKGEESNECERFAKYYRS 56 (72)
Q Consensus 26 Cw~~y~dy~rC~~~~Ged~~~C~~~~~~y~s 56 (72)
|-.-...|..|++.++.+...|..+.+.|..
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 4455678999999999999999999999984
No 6
>PF14345 GDYXXLXY: GDYXXLXY protein
Probab=76.68 E-value=1.2 Score=29.26 Aligned_cols=16 Identities=50% Similarity=0.509 Sum_probs=13.2
Q ss_pred cccccccCCCCCCCCC
Q 035149 4 DEIELKTAPADFRFPT 19 (72)
Q Consensus 4 ~~~~~~t~p~D~RfPn 19 (72)
.++.|+|+|+|||=+-
T Consensus 21 ~~v~L~~~PvDPRdll 36 (144)
T PF14345_consen 21 KEVTLKTAPVDPRDLL 36 (144)
T ss_pred CEEEEEecccCccccc
Confidence 4678999999999654
No 7
>COG4929 Uncharacterized membrane-anchored protein [Function unknown]
Probab=68.11 E-value=2.1 Score=30.65 Aligned_cols=14 Identities=57% Similarity=0.608 Sum_probs=11.7
Q ss_pred cccccccCCCCCCC
Q 035149 4 DEIELKTAPADFRF 17 (72)
Q Consensus 4 ~~~~~~t~p~D~Rf 17 (72)
.++.|+|+|.|||-
T Consensus 36 ~~IiLqtaPVDPRs 49 (190)
T COG4929 36 REIILQTAPVDPRS 49 (190)
T ss_pred CEEEEEeCCCChHH
Confidence 45779999999993
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=60.74 E-value=9.8 Score=22.74 Aligned_cols=35 Identities=17% Similarity=0.262 Sum_probs=30.5
Q ss_pred HHHHHHHHHhHHHHHHHhhhCCCchhHHHHHHHHH
Q 035149 21 NQTRHCFTRYIEFHRCLAAKGEESNECERFAKYYR 55 (72)
Q Consensus 21 nQ~k~Cw~~y~dy~rC~~~~Ged~~~C~~~~~~y~ 55 (72)
.+|-.|--....|.+|.+++---.-.|...+..|+
T Consensus 17 ~~RDyCAh~Li~l~kCrr~~~p~~~~C~~erH~y~ 51 (66)
T PF05676_consen 17 QYRDYCAHLLIPLNKCRRDNFPFPWKCEHERHEYE 51 (66)
T ss_pred hhhhhHHHHHHHHHHHHHhCCCCcccCCcchhhHH
Confidence 57899999999999999988766678998888887
No 9
>KOG4090 consensus Uncharacterized conserved protein [Function unknown]
Probab=53.83 E-value=20 Score=24.93 Aligned_cols=37 Identities=24% Similarity=0.668 Sum_probs=30.7
Q ss_pred HHHHHHHHhHHHHHHHhhhCCCchhHHHHHHHHHhcCh
Q 035149 22 QTRHCFTRYIEFHRCLAAKGEESNECERFAKYYRSLCP 59 (72)
Q Consensus 22 Q~k~Cw~~y~dy~rC~~~~Ged~~~C~~~~~~y~slCP 59 (72)
|...|.----.|..|+...|.|.+.|..|....+ -|-
T Consensus 114 ~~~~C~~e~kqF~dCa~~~~~d~slC~~f~e~Lk-~Ck 150 (157)
T KOG4090|consen 114 QQQPCFIEIKQFLDCAQNQGSDISLCEGYNEMLK-QCK 150 (157)
T ss_pred hcCchHHHHHHHHHHHHhcCcchHHHHHHHHHHH-HHH
Confidence 3466988888999999999999999999987765 443
No 10
>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=52.48 E-value=14 Score=22.01 Aligned_cols=32 Identities=13% Similarity=0.471 Sum_probs=23.9
Q ss_pred hHHHHHHHhhhCCCchhHHHHHHHHHhcChHHH
Q 035149 30 YIEFHRCLAAKGEESNECERFAKYYRSLCPGDW 62 (72)
Q Consensus 30 y~dy~rC~~~~Ged~~~C~~~~~~y~slCP~~W 62 (72)
-..-.+||..+|-|.+.|..+...|.. |=..|
T Consensus 8 Ac~iq~CL~~N~Yd~~kC~~~i~~l~~-Cck~~ 39 (67)
T PF08991_consen 8 ACAIQKCLQRNNYDESKCQDYIDALYE-CCKKF 39 (67)
T ss_dssp HHHHHHHHHHTTT-CCCTHHHHHHHHH-HHTTS
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHH-HHHHH
Confidence 345678999999999999999998883 44444
No 11
>KOG4624 consensus Uncharacterized conserved protein [Function unknown]
Probab=46.61 E-value=51 Score=21.54 Aligned_cols=42 Identities=19% Similarity=0.423 Sum_probs=31.0
Q ss_pred hHHHHHHHHHhHHHHHHHhhhCCC-chhHHHHHHHHHhcChHHH
Q 035149 20 TNQTRHCFTRYIEFHRCLAAKGEE-SNECERFAKYYRSLCPGDW 62 (72)
Q Consensus 20 ~nQ~k~Cw~~y~dy~rC~~~~Ged-~~~C~~~~~~y~slCP~~W 62 (72)
+..|..|-+.+.+|-.|.+..|.. ...|......+. .|-.+|
T Consensus 27 kakt~~C~~~v~~~a~C~k~~~v~vv~TCrkq~~elk-~Cl~~~ 69 (104)
T KOG4624|consen 27 KAKTEKCSEFVQDFADCAKASGVSVVPTCRKQNSELK-ECLTQY 69 (104)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCeeeehhhHHHHHHHH-HHHHHH
Confidence 456789999999999999998854 566777766665 344444
No 12
>CHL00088 apcB allophycocyanin beta subunit
Probab=37.78 E-value=52 Score=22.49 Aligned_cols=53 Identities=17% Similarity=0.233 Sum_probs=39.1
Q ss_pred cCCCCCCCCChHHHHHHHHHhHHHHHHHhh--hCCC----chhH-HHHHHHHHhc-ChHHHH
Q 035149 10 TAPADFRFPTTNQTRHCFTRYIEFHRCLAA--KGEE----SNEC-ERFAKYYRSL-CPGDWV 63 (72)
Q Consensus 10 t~p~D~RfPn~nQ~k~Cw~~y~dy~rC~~~--~Ged----~~~C-~~~~~~y~sl-CP~~Wv 63 (72)
+.|....+|+.. ...||-=..-|-|++.- ..+| .+.| .-++-.|+++ +|..|+
T Consensus 66 ~~~Gg~~y~~~r-~~~C~RD~~~~LR~itYaivaGd~~~L~e~~L~GlrE~y~~Lgvp~~~~ 126 (161)
T CHL00088 66 TRPGGNMYTTRR-YAACIRDLDYYLRYATYGMLAGDPSILDERVLNGLKETYNSLGVPIGAT 126 (161)
T ss_pred cCCCCCccChHH-HHHHHHHHhhhccceeeeeecCCchHHHHHHHHHHHHHHHHhCCCHHHH
Confidence 456666665544 77899999999998871 2223 4556 7889999996 999986
No 13
>PF05240 APOBEC_C: APOBEC-like C-terminal domain; InterPro: IPR007904 This domain is found at the C terminus of the Apolipoprotein B mRNA editing enzyme. Apobec-1 catalyzes C to U editing of apolipoprotein B (apoB) mRNA in the mammalian intestine. C to U RNA editing of mammalian apolipoprotein B (apoB) RNA is a site-specific posttranscriptional modification in which a single cytidine is enzymatically deaminated to uridine, thereby generating a UAA stop codon in the edited mRNA. The function of this domain is currently unknown.; GO: 0008270 zinc ion binding, 0016814 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines; PDB: 2NYT_D.
Probab=37.60 E-value=18 Score=20.93 Aligned_cols=17 Identities=12% Similarity=0.436 Sum_probs=10.7
Q ss_pred CChHHHHHHHHHhHHHH
Q 035149 18 PTTNQTRHCFTRYIEFH 34 (72)
Q Consensus 18 Pn~nQ~k~Cw~~y~dy~ 34 (72)
.+-.+-.+||+++|+.-
T Consensus 21 M~~~eF~~CW~nFV~~~ 37 (55)
T PF05240_consen 21 MTYSEFQYCWENFVDNQ 37 (55)
T ss_dssp --HHHHHHHHHHCB--T
T ss_pred cCcHHHHHHHHHHhcCC
Confidence 44567789999999864
No 14
>KOG4763 consensus Ubiquinol-cytochrome c reductase hinge protein [Energy production and conversion]
Probab=36.86 E-value=31 Score=21.40 Aligned_cols=19 Identities=26% Similarity=0.817 Sum_probs=15.7
Q ss_pred HHHHHHHHHhHHHHHHHhh
Q 035149 21 NQTRHCFTRYIEFHRCLAA 39 (72)
Q Consensus 21 nQ~k~Cw~~y~dy~rC~~~ 39 (72)
+--++|-+-|-||+.|++.
T Consensus 48 ~tee~Ct~e~fDy~h~~Dh 66 (77)
T KOG4763|consen 48 STEEHCTGEYFDYWHCLDH 66 (77)
T ss_pred ccchhhHHHHHHHHHHHHH
Confidence 3457999999999999874
No 15
>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=36.28 E-value=7.4 Score=22.11 Aligned_cols=12 Identities=33% Similarity=1.140 Sum_probs=10.0
Q ss_pred HHHHhcChHHHH
Q 035149 52 KYYRSLCPGDWV 63 (72)
Q Consensus 52 ~~y~slCP~~Wv 63 (72)
+.|.+.||..|+
T Consensus 3 rdys~~CP~~W~ 14 (60)
T PF09717_consen 3 RDYSQPCPEGWI 14 (60)
T ss_pred Cccccccccccc
Confidence 357788999998
No 16
>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=36.03 E-value=8.6 Score=16.60 Aligned_cols=12 Identities=50% Similarity=0.767 Sum_probs=8.2
Q ss_pred CCCCCCCCChHH
Q 035149 11 APADFRFPTTNQ 22 (72)
Q Consensus 11 ~p~D~RfPn~nQ 22 (72)
...--|||.-||
T Consensus 3 hsmrlrfptlnq 14 (14)
T PF08057_consen 3 HSMRLRFPTLNQ 14 (14)
T ss_pred cceeeeccccCC
Confidence 344568998776
No 17
>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=34.07 E-value=5.9 Score=22.86 Aligned_cols=14 Identities=36% Similarity=1.028 Sum_probs=11.1
Q ss_pred HHHHhcChHHHHHh
Q 035149 52 KYYRSLCPGDWVSI 65 (72)
Q Consensus 52 ~~y~slCP~~Wv~~ 65 (72)
+.|.+.||..|+..
T Consensus 4 rdYs~~CP~~W~~~ 17 (62)
T TIGR01492 4 ENYSSPCPENWIQK 17 (62)
T ss_pred cccCccCCccceec
Confidence 45778999999864
No 18
>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=31.68 E-value=46 Score=19.78 Aligned_cols=32 Identities=22% Similarity=0.388 Sum_probs=19.4
Q ss_pred hHHHHHHHhhh-CCCchhHHHHHHHHHhcChHHH
Q 035149 30 YIEFHRCLAAK-GEESNECERFAKYYRSLCPGDW 62 (72)
Q Consensus 30 y~dy~rC~~~~-Ged~~~C~~~~~~y~slCP~~W 62 (72)
...+..|++.. .+-...|+.+++.|- .|--+.
T Consensus 26 ~~t~~~Cl~~~~~~~p~eC~~lr~~f~-eCKrg~ 58 (68)
T PF10203_consen 26 KRTPKDCLKDPSDELPEECQQLRKAFF-ECKRGM 58 (68)
T ss_pred CCCHHHHHcCCCCcCCHHHHHHHHHHH-HHhccc
Confidence 33455566555 344678988888886 444333
No 19
>KOG3458 consensus NADH:ubiquinone oxidoreductase, NDUFA8/PGIV/19 kDa subunit [Energy production and conversion]
Probab=30.76 E-value=59 Score=22.85 Aligned_cols=39 Identities=15% Similarity=0.553 Sum_probs=32.6
Q ss_pred HHHHHHHhHHHHHHHhhhC-CCchhHHHHHHHHHhcChHH
Q 035149 23 TRHCFTRYIEFHRCLAAKG-EESNECERFAKYYRSLCPGD 61 (72)
Q Consensus 23 ~k~Cw~~y~dy~rC~~~~G-ed~~~C~~~~~~y~slCP~~ 61 (72)
-++|-.-.++|+-|++..| -..+.|...+..|..-||.-
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 4788999999999999775 34788999999999888863
No 20
>PTZ00444 hypothetical protein; Provisional
Probab=29.80 E-value=6.1 Score=28.14 Aligned_cols=21 Identities=24% Similarity=0.797 Sum_probs=16.3
Q ss_pred hhHH--HHHHHHHhcChHHHHHh
Q 035149 45 NECE--RFAKYYRSLCPGDWVSI 65 (72)
Q Consensus 45 ~~C~--~~~~~y~slCP~~Wv~~ 65 (72)
..|. .+++-|..+||..|++.
T Consensus 90 ~~C~~p~~kRDYS~~CP~GW~k~ 112 (184)
T PTZ00444 90 HSCGEPSYERDYSYPCPEGWTKN 112 (184)
T ss_pred CcccCccccccCCCcCCccceec
Confidence 3454 46789999999999874
No 21
>TIGR01337 apcB allophycocyanin, beta subunit. The alpha and beta subunits of allophycocyanin form heterodimers, six of which associate into larger aggregates as part of the phycobilisome, a light-harvesting complex of phycobiliproteins and linker proteins. This model describes allophycocyanin beta subunit. Other, homologous phyobiliproteins include allophycocyanin alpha chain and the phycocyanin and phycoerythrin alpha and beta chains.
Probab=22.96 E-value=2.6e+02 Score=19.15 Aligned_cols=55 Identities=15% Similarity=0.189 Sum_probs=41.4
Q ss_pred cccCCCCCCCCChHHHHHHHHHhHHHHHHHh---hhCCC---chhH-HHHHHHHHh-cChHHHH
Q 035149 8 LKTAPADFRFPTTNQTRHCFTRYIEFHRCLA---AKGEE---SNEC-ERFAKYYRS-LCPGDWV 63 (72)
Q Consensus 8 ~~t~p~D~RfPn~nQ~k~Cw~~y~dy~rC~~---~~Ged---~~~C-~~~~~~y~s-lCP~~Wv 63 (72)
--+.|....+|+.. ...||.=..-|-|++. .-|+. .+.+ .-++-.|++ .||..|+
T Consensus 64 ~l~~~GG~~y~~~r-~~aC~RD~~~~LR~itYailaGd~~~L~~~~L~GlrE~y~~LgvP~~~~ 126 (167)
T TIGR01337 64 ELIRPGGNAYTTRR-YAACLRDIDYYLRYATYAIIAGDNSILEERVLNGLKETYNSLGVPIGPT 126 (167)
T ss_pred CcCCCCCCCCCHHH-HHHHHHHHHHHhhhhheeeecCCchHHHHHHHHHHHHHHHHcCCCHHHH
Confidence 34567778887766 7889999999999988 22322 4445 778999998 5999987
No 22
>PF10875 DUF2670: Protein of unknown function (DUF2670); InterPro: IPR022714 This bacterial family of proteins has no known function and appears to be restricted to Rickettsiaceae.
Probab=22.04 E-value=49 Score=22.51 Aligned_cols=22 Identities=27% Similarity=0.785 Sum_probs=16.9
Q ss_pred HHHHHH-------HHHhHHHHHHHhhhCC
Q 035149 21 NQTRHC-------FTRYIEFHRCLAAKGE 42 (72)
Q Consensus 21 nQ~k~C-------w~~y~dy~rC~~~~Ge 42 (72)
.-++|| |..-+.||.|+...|+
T Consensus 66 AvAqnCt~kL~p~~~~lv~fW~Cl~dpge 94 (139)
T PF10875_consen 66 AVAQNCTSKLGPNWGHLVSFWNCLSDPGE 94 (139)
T ss_pred HHHHhcccccCCccchHHHHHHHcCCCcc
Confidence 445666 7788899999998773
No 23
>COG5204 SPT4 Transcription elongation factor SPT4 [Transcription]
Probab=20.86 E-value=53 Score=21.55 Aligned_cols=11 Identities=27% Similarity=0.528 Sum_probs=8.9
Q ss_pred hHHHHHhhhhh
Q 035149 59 PGDWVSILQFF 69 (72)
Q Consensus 59 P~~Wv~~wd~k 69 (72)
..|||-+|.+-
T Consensus 62 t~SWVakWqri 72 (112)
T COG5204 62 TNSWVAKWQRI 72 (112)
T ss_pred cHHHHHHHhhh
Confidence 47999999864
Done!