Query 035107
Match_columns 73
No_of_seqs 105 out of 166
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 09:15:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035107.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035107hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3477 Putative cytochrome c 100.0 7.4E-30 1.6E-34 167.8 5.5 71 1-71 27-97 (97)
2 PF06747 CHCH: CHCH domain; I 99.1 5.5E-11 1.2E-15 63.5 2.8 35 4-38 1-35 (35)
3 KOG4695 Uncharacterized conser 94.4 0.061 1.3E-06 37.1 3.6 43 2-44 46-91 (122)
4 PF08991 DUF1903: Domain of un 93.5 0.12 2.5E-06 32.0 3.4 35 3-37 3-37 (67)
5 cd00926 Cyt_c_Oxidase_VIb Cyto 91.1 0.41 8.9E-06 29.9 3.7 30 4-33 23-52 (75)
6 KOG4618 Uncharacterized conser 83.0 2.3 4.9E-05 27.3 3.6 34 3-36 23-56 (74)
7 KOG3057 Cytochrome c oxidase, 82.6 2.2 4.8E-05 29.1 3.6 30 4-33 58-87 (112)
8 PF05676 NDUF_B7: NADH-ubiquin 82.5 1.1 2.3E-05 27.7 1.9 36 3-38 21-56 (66)
9 PF02297 COX6B: Cytochrome oxi 82.0 1.5 3.2E-05 26.9 2.4 32 4-35 12-53 (76)
10 PF10203 Pet191_N: Cytochrome 81.1 1.7 3.7E-05 26.8 2.4 27 11-37 29-56 (68)
11 PF08583 Cmc1: Cytochrome c ox 75.9 2.9 6.2E-05 24.2 2.3 34 3-36 12-46 (69)
12 PF10200 Ndufs5: NADH:ubiquino 73.6 6 0.00013 26.1 3.5 39 2-40 31-71 (96)
13 PF01111 CKS: Cyclin-dependent 70.3 2.8 6.1E-05 26.4 1.3 21 39-59 31-51 (70)
14 KOG4090 Uncharacterized conser 69.4 9 0.0002 27.5 3.9 39 3-41 117-155 (157)
15 PF05051 COX17: Cytochrome C o 68.0 6.5 0.00014 23.3 2.5 19 3-21 30-48 (49)
16 KOG3481 Uncharacterized conser 65.2 14 0.0003 24.3 3.9 50 2-51 11-71 (87)
17 KOG4083 Head-elevated expressi 64.2 6.2 0.00014 29.2 2.3 34 3-36 147-180 (192)
18 PLN00010 cyclin-dependent kina 60.9 4.3 9.3E-05 26.6 0.9 22 38-59 32-53 (86)
19 KOG3484 Cyclin-dependent prote 57.0 5.4 0.00012 26.4 0.8 21 39-59 35-55 (91)
20 PHA03005 sulfhydryl oxidase; P 54.9 10 0.00023 25.3 1.9 24 22-48 43-66 (96)
21 PF10249 NDUFB10: NADH-ubiquin 53.2 18 0.00038 25.0 3.0 25 10-34 69-94 (128)
22 PF05051 COX17: Cytochrome C o 52.8 33 0.00071 20.3 3.7 30 4-35 12-41 (49)
23 PTZ00453 cyclin-dependent kina 50.7 7.3 0.00016 26.0 0.7 21 39-59 57-77 (96)
24 KOG3458 NADH:ubiquinone oxidor 48.5 19 0.00041 26.1 2.6 44 3-46 77-121 (170)
25 PF04805 Pox_E10: E10-like pro 42.3 23 0.0005 22.5 2.0 24 22-48 18-41 (70)
26 PLN03079 Uncharacterized prote 38.2 64 0.0014 21.3 3.7 38 2-39 16-61 (91)
27 KOG4114 Cytochrome c oxidase a 37.3 35 0.00077 21.8 2.3 24 13-36 31-56 (73)
28 PF02320 UCR_hinge: Ubiquinol- 35.4 68 0.0015 19.4 3.3 34 3-36 16-52 (65)
29 PF07802 GCK: GCK domain; Int 34.9 66 0.0014 20.3 3.3 34 2-35 12-50 (76)
30 PF05254 UPF0203: Uncharacteri 32.4 87 0.0019 19.2 3.4 37 2-38 7-51 (68)
31 PF04727 ELMO_CED12: ELMO/CED- 30.4 19 0.00041 24.2 0.2 15 43-57 42-56 (170)
32 KOG3468 NADH:ubiquinone oxidor 27.6 35 0.00075 23.8 1.2 37 3-39 56-92 (128)
33 PF03392 OS-D: Insect pheromon 25.5 82 0.0018 20.2 2.6 21 7-31 19-39 (95)
34 PF07956 DUF1690: Protein of U 25.0 1.3E+02 0.0028 20.6 3.6 33 3-35 108-140 (142)
35 PF11001 DUF2841: Protein of u 22.7 1.8E+02 0.0038 19.9 3.9 25 8-34 10-34 (126)
36 PF12162 STAT1_TAZ2bind: STAT1 21.4 29 0.00062 17.7 -0.1 9 42-50 10-18 (23)
No 1
>KOG3477 consensus Putative cytochrome c oxidase, subunit COX19 [Energy production and conversion]
Probab=99.96 E-value=7.4e-30 Score=167.83 Aligned_cols=71 Identities=45% Similarity=0.921 Sum_probs=68.2
Q ss_pred CcccHHHHHHHHHHHHhcCCCChHHHHHHHHHhhchhcccccChhhhcccCCCCCCCCCCCCccCCCCCcC
Q 035107 1 MHQCDLEKKDYIGCLKSSGHQSENCRIFSKKYLECRMAKNLMAKQDLSELGFRNEGDLENPREENNGRIEN 71 (73)
Q Consensus 1 ~geCk~~m~~Yl~CLk~~~~~~~~CR~laK~YL~CRMd~~LM~kdd~~~LGf~~~~~~~~~~~kn~~~~~~ 71 (73)
+|||+..|+.||.||+....+++.||.+||+||+|||+++||++|||.+|||++.++..++..+|.++|.|
T Consensus 27 ~geC~~em~eYl~Cl~~k~e~~~eCR~laK~YlqCRMdh~Lmdkdd~~~LG~~~~k~ls~~nd~~~~s~dn 97 (97)
T KOG3477|consen 27 LGECTAEMKEYLGCLKSKAENSEECRLLAKKYLQCRMDHGLMDKDDMAELGFSGVKELSSTNDKNTESIDN 97 (97)
T ss_pred ccccHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhhhcccccHHHHHHcCCCccccCcCCCCcccccccC
Confidence 68999999999999999999999999999999999999999999999999999999988888899999876
No 2
>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=99.11 E-value=5.5e-11 Score=63.53 Aligned_cols=35 Identities=43% Similarity=0.789 Sum_probs=32.8
Q ss_pred cHHHHHHHHHHHHhcCCCChHHHHHHHHHhhchhc
Q 035107 4 CDLEKKDYIGCLKSSGHQSENCRIFSKKYLECRMA 38 (73)
Q Consensus 4 Ck~~m~~Yl~CLk~~~~~~~~CR~laK~YL~CRMd 38 (73)
|..+|..|+.||+.|+.+.+.||.+++.|++|||+
T Consensus 1 C~~e~~~~~~Cl~~n~~~~~~C~~~~~~~~~C~~~ 35 (35)
T PF06747_consen 1 CAEEMKAYLACLKENNFDWSKCRKEFKAYKECRMK 35 (35)
T ss_dssp THHHHHHHHHHHHCH-SSTCCCHHHHHHHHHHHCC
T ss_pred CHHHHHHHHHHHHHCCCcHHhhHHHHHHHHHHhhC
Confidence 88999999999999999999999999999999985
No 3
>KOG4695 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.39 E-value=0.061 Score=37.11 Aligned_cols=43 Identities=21% Similarity=0.461 Sum_probs=36.1
Q ss_pred cccHHHHHHHHHHHHhcCCCChHHHHHHHHHhhch---hcccccCh
Q 035107 2 HQCDLEKKDYIGCLKSSGHQSENCRIFSKKYLECR---MAKNLMAK 44 (73)
Q Consensus 2 geCk~~m~~Yl~CLk~~~~~~~~CR~laK~YL~CR---Md~~LM~k 44 (73)
.-|..+|..-+.|||.|......||+.-.-|+.|- |+..--.|
T Consensus 46 ~tC~qEm~vlfaClK~nEF~d~~C~Kei~~f~dC~~~ya~ea~~~r 91 (122)
T KOG4695|consen 46 ATCIQEMSVLFACLKQNEFRDDACRKEIQGFLDCAARYAQEARKMR 91 (122)
T ss_pred hHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35999999999999999999999999999999984 55543333
No 4
>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=93.52 E-value=0.12 Score=32.01 Aligned_cols=35 Identities=20% Similarity=0.464 Sum_probs=31.1
Q ss_pred ccHHHHHHHHHHHHhcCCCChHHHHHHHHHhhchh
Q 035107 3 QCDLEKKDYIGCLKSSGHQSENCRIFSKKYLECRM 37 (73)
Q Consensus 3 eCk~~m~~Yl~CLk~~~~~~~~CR~laK~YL~CRM 37 (73)
-|+.+.-.-..||..|+++.++|...-.+|-.|.-
T Consensus 3 PC~~~Ac~iq~CL~~N~Yd~~kC~~~i~~l~~Cck 37 (67)
T PF08991_consen 3 PCQKEACAIQKCLQRNNYDESKCQDYIDALYECCK 37 (67)
T ss_dssp TTHHHHHHHHHHHHHTTT-CCCTHHHHHHHHHHHT
T ss_pred chHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence 48888889999999999999999999999999964
No 5
>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=91.13 E-value=0.41 Score=29.91 Aligned_cols=30 Identities=30% Similarity=0.695 Sum_probs=26.2
Q ss_pred cHHHHHHHHHHHHhcCCCChHHHHHHHHHh
Q 035107 4 CDLEKKDYIGCLKSSGHQSENCRIFSKKYL 33 (73)
Q Consensus 4 Ck~~m~~Yl~CLk~~~~~~~~CR~laK~YL 33 (73)
|-..-..|.+||+.++.+++.|..+-+.|=
T Consensus 23 Cw~~y~~y~~Cl~~~ged~~~C~~~~~~~e 52 (75)
T cd00926 23 CWQRYVDYHRCIKAKGEDASPCKKFRRVYE 52 (75)
T ss_pred HHHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence 555667899999999999999999998883
No 6
>KOG4618 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.05 E-value=2.3 Score=27.26 Aligned_cols=34 Identities=26% Similarity=0.631 Sum_probs=29.7
Q ss_pred ccHHHHHHHHHHHHhcCCCChHHHHHHHHHhhch
Q 035107 3 QCDLEKKDYIGCLKSSGHQSENCRIFSKKYLECR 36 (73)
Q Consensus 3 eCk~~m~~Yl~CLk~~~~~~~~CR~laK~YL~CR 36 (73)
-|-..-..=++||.+|+.+-++|...--.|=+|+
T Consensus 23 PCl~es~aSfkCLeennyDRsKCq~yFd~YkeCK 56 (74)
T KOG4618|consen 23 PCLLESSASFKCLEENNYDRSKCQDYFDVYKECK 56 (74)
T ss_pred hHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHHH
Confidence 4666777788999999999999999999998885
No 7
>KOG3057 consensus Cytochrome c oxidase, subunit VIb/COX12 [Energy production and conversion]
Probab=82.58 E-value=2.2 Score=29.10 Aligned_cols=30 Identities=33% Similarity=0.727 Sum_probs=26.6
Q ss_pred cHHHHHHHHHHHHhcCCCChHHHHHHHHHh
Q 035107 4 CDLEKKDYIGCLKSSGHQSENCRIFSKKYL 33 (73)
Q Consensus 4 Ck~~m~~Yl~CLk~~~~~~~~CR~laK~YL 33 (73)
|=.--..|-+|++.++.+...|..+.+.|=
T Consensus 58 Cf~~y~dyhrC~~~~geD~~~Ck~f~~~y~ 87 (112)
T KOG3057|consen 58 CFQRYVDYHRCIKAKGEDANPCKKFQKVYR 87 (112)
T ss_pred HHHHHHHHHHHHHHhcccchhHHHHHHHHH
Confidence 555667899999999999999999999994
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=82.52 E-value=1.1 Score=27.74 Aligned_cols=36 Identities=14% Similarity=0.219 Sum_probs=32.3
Q ss_pred ccHHHHHHHHHHHHhcCCCChHHHHHHHHHhhchhc
Q 035107 3 QCDLEKKDYIGCLKSSGHQSENCRIFSKKYLECRMA 38 (73)
Q Consensus 3 eCk~~m~~Yl~CLk~~~~~~~~CR~laK~YL~CRMd 38 (73)
-|-...+.|++|.+.+-..+-+|..+--+|-.|.-+
T Consensus 21 yCAh~Li~l~kCrr~~~p~~~~C~~erH~y~~C~y~ 56 (66)
T PF05676_consen 21 YCAHLLIPLNKCRRDNFPFPWKCEHERHEYEKCQYD 56 (66)
T ss_pred hHHHHHHHHHHHHHhCCCCcccCCcchhhHHHccHH
Confidence 488899999999999988889999999999999754
No 9
>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=82.04 E-value=1.5 Score=26.93 Aligned_cols=32 Identities=34% Similarity=0.898 Sum_probs=27.1
Q ss_pred cHHHHHHHHHHHHhcCC---------CChHHHHHHHHHhh-c
Q 035107 4 CDLEKKDYIGCLKSSGH---------QSENCRIFSKKYLE-C 35 (73)
Q Consensus 4 Ck~~m~~Yl~CLk~~~~---------~~~~CR~laK~YL~-C 35 (73)
|=..-..|.+||..++. +.+.|..+-+.|-+ |
T Consensus 12 Cw~arD~y~~Cl~~~~~~~~~~~~~~~~~~C~~~~~~ye~~C 53 (76)
T PF02297_consen 12 CWQARDDYFKCLDKNGEPDSEKEKKKDESACKYFRKNYESNC 53 (76)
T ss_dssp HHHHHHHHHHHHHHHHH------TTTTGGGGHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHcCccccccccccchhhhHHHHHHHHHhC
Confidence 55566789999999988 88999999999965 6
No 10
>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=81.08 E-value=1.7 Score=26.79 Aligned_cols=27 Identities=30% Similarity=0.706 Sum_probs=19.8
Q ss_pred HHHHHHhc-CCCChHHHHHHHHHhhchh
Q 035107 11 YIGCLKSS-GHQSENCRIFSKKYLECRM 37 (73)
Q Consensus 11 Yl~CLk~~-~~~~~~CR~laK~YL~CRM 37 (73)
+-.||+.+ ..-+..|..+-+.|.+|+.
T Consensus 29 ~~~Cl~~~~~~~p~eC~~lr~~f~eCKr 56 (68)
T PF10203_consen 29 PKDCLKDPSDELPEECQQLRKAFFECKR 56 (68)
T ss_pred HHHHHcCCCCcCCHHHHHHHHHHHHHhc
Confidence 33455555 4556799999999999984
No 11
>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=75.86 E-value=2.9 Score=24.25 Aligned_cols=34 Identities=26% Similarity=0.410 Sum_probs=28.6
Q ss_pred ccHHHHHHHHHHHHhc-CCCChHHHHHHHHHhhch
Q 035107 3 QCDLEKKDYIGCLKSS-GHQSENCRIFSKKYLECR 36 (73)
Q Consensus 3 eCk~~m~~Yl~CLk~~-~~~~~~CR~laK~YL~CR 36 (73)
.|..++..|..|-+.. ......||...+..-+|=
T Consensus 12 ~C~~~i~~~~~C~~~~~~~~~~~C~~~~~~m~~Cl 46 (69)
T PF08583_consen 12 KCADEIEAFAECHKDRTFKFVGKCREEKKAMNECL 46 (69)
T ss_pred HhHHHHHHHHHHHhcchHHHHHhhhHHHHHHHHHH
Confidence 6999999999999985 345579999999988884
No 12
>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=73.59 E-value=6 Score=26.13 Aligned_cols=39 Identities=23% Similarity=0.635 Sum_probs=32.1
Q ss_pred cccHHHHHHHHHHHHhcCCC--ChHHHHHHHHHhhchhccc
Q 035107 2 HQCDLEKKDYIGCLKSSGHQ--SENCRIFSKKYLECRMAKN 40 (73)
Q Consensus 2 geCk~~m~~Yl~CLk~~~~~--~~~CR~laK~YL~CRMd~~ 40 (73)
+-|-.+-..|+.|+...+.. ...|+.+--+|++|-.-..
T Consensus 31 ~RC~~FE~e~i~C~~~~G~~r~kKeC~~e~EDy~EClh~~K 71 (96)
T PF10200_consen 31 SRCHPFEKEWIECAEAYGQTRGKKECKLELEDYYECLHHTK 71 (96)
T ss_pred CchHHHHHHHHHHHHHHcccchhhhchhHHhHHHHHHhhHH
Confidence 56888999999999887543 4699999999999976544
No 13
>PF01111 CKS: Cyclin-dependent kinase regulatory subunit; InterPro: IPR000789 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. In eukaryotes, cyclin-dependent protein kinases interact with cyclins to regulate cell cycle progression, and are required for the G1 and G2 stages of cell division []. The proteins bind to a regulatory subunit, cyclin-dependent kinase regulatory subunit (CKS), which is essential for their function. This regulatory subunit is a small protein of 79 to 150 residues. In yeast (gene CKS1) and in fission yeast (gene suc1) a single isoform is known, while mammals have two highly related isoforms. The regulatory subunits exist as hexamers, formed by the symmetrical assembly of 3 interlocked homodimers, creating an unusual 12-stranded beta-barrel structure []. Through the barrel centre runs a 12A diameter tunnel, lined by 6 exposed helix pairs []. Six kinase units can be modelled to bind the hexameric structure, which may thus act as a hub for cyclin-dependent protein kinase multimerisation [, ].; GO: 0016538 cyclin-dependent protein kinase regulator activity, 0007049 cell cycle; PDB: 1CKS_C 3QY2_B 1QB3_C 1SCE_B 1PUC_A 1DKS_B 2AST_C 1BUH_B 1DKT_B 2ASS_C.
Probab=70.32 E-value=2.8 Score=26.38 Aligned_cols=21 Identities=19% Similarity=0.446 Sum_probs=11.7
Q ss_pred ccccChhhhcccCCCCCCCCC
Q 035107 39 KNLMAKQDLSELGFRNEGDLE 59 (73)
Q Consensus 39 ~~LM~kdd~~~LGf~~~~~~~ 59 (73)
..||+.++|.+||.....+|.
T Consensus 31 ~~llsE~EWR~LGIqqS~GW~ 51 (70)
T PF01111_consen 31 DRLLSEEEWRGLGIQQSPGWE 51 (70)
T ss_dssp CS---HHHHHHTT--S-TT-E
T ss_pred CcccCHHHHHhhCCccCCCcE
Confidence 379999999999998777654
No 14
>KOG4090 consensus Uncharacterized conserved protein [Function unknown]
Probab=69.38 E-value=9 Score=27.53 Aligned_cols=39 Identities=21% Similarity=0.587 Sum_probs=34.0
Q ss_pred ccHHHHHHHHHHHHhcCCCChHHHHHHHHHhhchhcccc
Q 035107 3 QCDLEKKDYIGCLKSSGHQSENCRIFSKKYLECRMAKNL 41 (73)
Q Consensus 3 eCk~~m~~Yl~CLk~~~~~~~~CR~laK~YL~CRMd~~L 41 (73)
-|.-+.+.|+.|+..++.+.+.|--+-.--=+|+-.++|
T Consensus 117 ~C~~e~kqF~dCa~~~~~d~slC~~f~e~Lk~Ck~~~~~ 155 (157)
T KOG4090|consen 117 PCFIEIKQFLDCAQNQGSDISLCEGYNEMLKQCKKNSGL 155 (157)
T ss_pred chHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHhcc
Confidence 499999999999999999999999888877788866554
No 15
>PF05051 COX17: Cytochrome C oxidase copper chaperone (COX17); InterPro: IPR007745 Cox17p is essential for the assembly of functional cytochrome c oxidase (CCO) and for delivery of copper ions to the mitochondrion for insertion into the enzyme in Saccharomyces cerevisiae [].; GO: 0005507 copper ion binding, 0016531 copper chaperone activity, 0006825 copper ion transport, 0005758 mitochondrial intermembrane space; PDB: 1U97_A 1U96_A 1Z2G_A 2RNB_A 2RN9_A 2LGQ_A 2L0Y_B.
Probab=68.04 E-value=6.5 Score=23.30 Aligned_cols=19 Identities=16% Similarity=0.490 Sum_probs=16.5
Q ss_pred ccHHHHHHHHHHHHhcCCC
Q 035107 3 QCDLEKKDYIGCLKSSGHQ 21 (73)
Q Consensus 3 eCk~~m~~Yl~CLk~~~~~ 21 (73)
.|+.++.+|-+||+..|.+
T Consensus 30 ~C~~~Ieahk~Cmr~~GF~ 48 (49)
T PF05051_consen 30 DCKELIEAHKACMRGEGFK 48 (49)
T ss_dssp CCHHHHHHHHHHHHHHTCC
T ss_pred HHHHHHHHHHHHHHHcCCC
Confidence 5999999999999987754
No 16
>KOG3481 consensus Uncharacterized conserved protein [Function unknown]
Probab=65.16 E-value=14 Score=24.29 Aligned_cols=50 Identities=22% Similarity=0.418 Sum_probs=37.9
Q ss_pred cccHHHHHHHHHHHHh--------cCCCChHHHHHHHHHhhch---hcccccChhhhcccC
Q 035107 2 HQCDLEKKDYIGCLKS--------SGHQSENCRIFSKKYLECR---MAKNLMAKQDLSELG 51 (73)
Q Consensus 2 geCk~~m~~Yl~CLk~--------~~~~~~~CR~laK~YL~CR---Md~~LM~kdd~~~LG 51 (73)
.+|+.....|=+|.-. .......|-.|=+.|.+|- .+..+..+.+++.-|
T Consensus 11 ~eCt~lk~~YD~CFn~Wf~eKflKG~~~~~pC~~l~k~Y~~Cv~kal~tk~i~~~~Le~~r 71 (87)
T KOG3481|consen 11 PECTDLKQKYDQCFNEWFSEKFLKGDSSGEPCSRLFKVYKQCVQKALKTKRIFPIGLEEAR 71 (87)
T ss_pred ccchHHHHHHHHHHHHHHHHHhcCCccccCcHHHHHHHHHHHHHHHHhhcCCChhhhHHHH
Confidence 5899999999999864 2345679999999999995 444566666565555
No 17
>KOG4083 consensus Head-elevated expression protein [Transcription]
Probab=64.22 E-value=6.2 Score=29.16 Aligned_cols=34 Identities=12% Similarity=0.449 Sum_probs=30.3
Q ss_pred ccHHHHHHHHHHHHhcCCCChHHHHHHHHHhhch
Q 035107 3 QCDLEKKDYIGCLKSSGHQSENCRIFSKKYLECR 36 (73)
Q Consensus 3 eCk~~m~~Yl~CLk~~~~~~~~CR~laK~YL~CR 36 (73)
.|...-...|.|++.|-...-+|-.+++.|-+|-
T Consensus 147 vCqdlq~qil~Cyr~~p~e~LkC~~lv~af~~Cv 180 (192)
T KOG4083|consen 147 VCQDLQAQILRCYRENPGEVLKCSPLVAAFMKCV 180 (192)
T ss_pred cccccHHHHHHHHhcCCCccccccHHHHHHHHHH
Confidence 4667777899999999889999999999999994
No 18
>PLN00010 cyclin-dependent kinases regulatory subunit; Provisional
Probab=60.95 E-value=4.3 Score=26.62 Aligned_cols=22 Identities=9% Similarity=0.315 Sum_probs=18.2
Q ss_pred cccccChhhhcccCCCCCCCCC
Q 035107 38 AKNLMAKQDLSELGFRNEGDLE 59 (73)
Q Consensus 38 d~~LM~kdd~~~LGf~~~~~~~ 59 (73)
...||+.++|..||.....+|.
T Consensus 32 k~~LL~E~EWR~LGIqqS~GW~ 53 (86)
T PLN00010 32 KNRLLSENEWRAIGVQQSRGWV 53 (86)
T ss_pred cCcccCHHHHHHhccccCCCcE
Confidence 3569999999999998876654
No 19
>KOG3484 consensus Cyclin-dependent protein kinase CDC28, regulatory subunit CKS1, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=56.96 E-value=5.4 Score=26.37 Aligned_cols=21 Identities=14% Similarity=0.278 Sum_probs=17.4
Q ss_pred ccccChhhhcccCCCCCCCCC
Q 035107 39 KNLMAKQDLSELGFRNEGDLE 59 (73)
Q Consensus 39 ~~LM~kdd~~~LGf~~~~~~~ 59 (73)
+-||+.+||..||.....+|.
T Consensus 35 ~rllsE~EWR~lGvqQS~GW~ 55 (91)
T KOG3484|consen 35 NRLLSETEWRGLGVQQSLGWV 55 (91)
T ss_pred cccccHHHHhhhCccccCCee
Confidence 469999999999998776653
No 20
>PHA03005 sulfhydryl oxidase; Provisional
Probab=54.87 E-value=10 Score=25.29 Aligned_cols=24 Identities=33% Similarity=0.632 Sum_probs=20.5
Q ss_pred ChHHHHHHHHHhhchhcccccChhhhc
Q 035107 22 SENCRIFSKKYLECRMAKNLMAKQDLS 48 (73)
Q Consensus 22 ~~~CR~laK~YL~CRMd~~LM~kdd~~ 48 (73)
=+.||..|+++++ ++|.|+..|..
T Consensus 43 C~~Cr~HA~~ai~---knnimSs~diN 66 (96)
T PHA03005 43 CPACRRHAKEAIE---KNNIMSSNDLN 66 (96)
T ss_pred CHHHHHHHHHHHh---hcCccccCCcc
Confidence 4689999999998 59999988864
No 21
>PF10249 NDUFB10: NADH-ubiquinone oxidoreductase subunit 10; InterPro: IPR019377 NADH-ubiquinone oxidoreductase subunit 10 of (NDUFB10) is a member of a family of conserved proteins of up to 180 residues. It is one of the 41 protein subunits within the hydrophobic fraction of the NADH:ubiquinone oxidoreductase (complex I), a multiprotein complex located in the inner mitochondrial membrane whose main function is the transport of electrons from NADH to ubiquinone, which is accompanied by translocation of protons from the mitochondrial matrix to the intermembrane space. NDUFB10 is encoded in the nucleus.
Probab=53.23 E-value=18 Score=25.03 Aligned_cols=25 Identities=28% Similarity=0.650 Sum_probs=22.4
Q ss_pred HHHHHHHhcCCCC-hHHHHHHHHHhh
Q 035107 10 DYIGCLKSSGHQS-ENCRIFSKKYLE 34 (73)
Q Consensus 10 ~Yl~CLk~~~~~~-~~CR~laK~YL~ 34 (73)
.+-.|...+|.|. .+|+.+.+.|++
T Consensus 69 Rl~~C~~~EG~nh~qnC~~l~~qy~e 94 (128)
T PF10249_consen 69 RLEACYRREGVNHYQNCRKLVEQYEE 94 (128)
T ss_pred HHHHHHHHHCcCHhhhhHHHHHHHHH
Confidence 5678999999999 899999999985
No 22
>PF05051 COX17: Cytochrome C oxidase copper chaperone (COX17); InterPro: IPR007745 Cox17p is essential for the assembly of functional cytochrome c oxidase (CCO) and for delivery of copper ions to the mitochondrion for insertion into the enzyme in Saccharomyces cerevisiae [].; GO: 0005507 copper ion binding, 0016531 copper chaperone activity, 0006825 copper ion transport, 0005758 mitochondrial intermembrane space; PDB: 1U97_A 1U96_A 1Z2G_A 2RNB_A 2RN9_A 2LGQ_A 2L0Y_B.
Probab=52.84 E-value=33 Score=20.30 Aligned_cols=30 Identities=23% Similarity=0.521 Sum_probs=25.5
Q ss_pred cHHHHHHHHHHHHhcCCCChHHHHHHHHHhhc
Q 035107 4 CDLEKKDYIGCLKSSGHQSENCRIFSKKYLEC 35 (73)
Q Consensus 4 Ck~~m~~Yl~CLk~~~~~~~~CR~laK~YL~C 35 (73)
|......==.|+-.|+.++ |+.+-..|-+|
T Consensus 12 CpetK~aRDeC~l~~g~e~--C~~~Ieahk~C 41 (49)
T PF05051_consen 12 CPETKKARDECILFNGEED--CKELIEAHKAC 41 (49)
T ss_dssp SHHHHHHHHHHHHHC-CCC--CHHHHHHHHHH
T ss_pred ChhHHHHhHhhHHhcChHH--HHHHHHHHHHH
Confidence 6777777788999998877 99999999999
No 23
>PTZ00453 cyclin-dependent kinase; Provisional
Probab=50.73 E-value=7.3 Score=26.01 Aligned_cols=21 Identities=19% Similarity=0.387 Sum_probs=18.1
Q ss_pred ccccChhhhcccCCCCCCCCC
Q 035107 39 KNLMAKQDLSELGFRNEGDLE 59 (73)
Q Consensus 39 ~~LM~kdd~~~LGf~~~~~~~ 59 (73)
..||+.++|..||.....+|.
T Consensus 57 ~~LL~E~EWR~LGIqqS~GW~ 77 (96)
T PTZ00453 57 SRLMSESEWRQLGVQQSVGWR 77 (96)
T ss_pred CccccHHHHHHhhhccCCCcE
Confidence 469999999999998877764
No 24
>KOG3458 consensus NADH:ubiquinone oxidoreductase, NDUFA8/PGIV/19 kDa subunit [Energy production and conversion]
Probab=48.51 E-value=19 Score=26.14 Aligned_cols=44 Identities=20% Similarity=0.360 Sum_probs=35.3
Q ss_pred ccHHHHHHHHHHHHhc-CCCChHHHHHHHHHhhchhcccccChhh
Q 035107 3 QCDLEKKDYIGCLKSS-GHQSENCRIFSKKYLECRMAKNLMAKQD 46 (73)
Q Consensus 3 eCk~~m~~Yl~CLk~~-~~~~~~CR~laK~YL~CRMd~~LM~kdd 46 (73)
-|-..|..|..|+-.. .+.=+.||+..+++=+|--++==..|.+
T Consensus 77 ~C~~e~~~y~~C~dysst~~f~~Crk~Q~~fdkcv~~kl~w~RP~ 121 (170)
T KOG3458|consen 77 SCLEEFTKYATCMDYSSTNEFSHCRKEQEAFDKCVPDKLNWTRPK 121 (170)
T ss_pred HhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhHhhcCCCCcc
Confidence 4889999999999988 5556799999999999987764444443
No 25
>PF04805 Pox_E10: E10-like protein conserved region; InterPro: IPR006890 This entry represents a family of probable FAD-linked sulphydryl oxidases found in poxviruses.; GO: 0016972 thiol oxidase activity, 0055114 oxidation-reduction process
Probab=42.32 E-value=23 Score=22.46 Aligned_cols=24 Identities=29% Similarity=0.695 Sum_probs=20.2
Q ss_pred ChHHHHHHHHHhhchhcccccChhhhc
Q 035107 22 SENCRIFSKKYLECRMAKNLMAKQDLS 48 (73)
Q Consensus 22 ~~~CR~laK~YL~CRMd~~LM~kdd~~ 48 (73)
-+.||..|++=++ ++|.|+.+|..
T Consensus 18 C~~Cr~HA~~ai~---kNNiMSs~DiN 41 (70)
T PF04805_consen 18 CPECRIHAKEAIQ---KNNIMSSNDIN 41 (70)
T ss_pred CHHHHHHHHHHHH---hcCccccCCcc
Confidence 4689999999876 78999998864
No 26
>PLN03079 Uncharacterized protein At4g33100; Provisional
Probab=38.18 E-value=64 Score=21.29 Aligned_cols=38 Identities=24% Similarity=0.482 Sum_probs=30.2
Q ss_pred cccHHHHHHHHHHHHhc-------CCC-ChHHHHHHHHHhhchhcc
Q 035107 2 HQCDLEKKDYIGCLKSS-------GHQ-SENCRIFSKKYLECRMAK 39 (73)
Q Consensus 2 geCk~~m~~Yl~CLk~~-------~~~-~~~CR~laK~YL~CRMd~ 39 (73)
.+|+.....|-.|...- |.- ...|..+=++|-+|-...
T Consensus 16 ~eCtelK~~YD~CFN~WYsEkFLKG~~~~~eC~~~w~~Yq~Cv~~a 61 (91)
T PLN03079 16 SPCAELRTAYHNCFNRWYSEKFVKGQWDKEDCVAEWHKYRACLSEH 61 (91)
T ss_pred cccHHHHHHHHHHHHHHHHHhhhcCCcccchHHHHHHHHHHHHHHH
Confidence 47999999999998732 222 368999999999997654
No 27
>KOG4114 consensus Cytochrome c oxidase assembly protein PET191 [Posttranslational modification, protein turnover, chaperones]
Probab=37.26 E-value=35 Score=21.77 Aligned_cols=24 Identities=29% Similarity=0.794 Sum_probs=17.7
Q ss_pred HHHHhcC--CCChHHHHHHHHHhhch
Q 035107 13 GCLKSSG--HQSENCRIFSKKYLECR 36 (73)
Q Consensus 13 ~CLk~~~--~~~~~CR~laK~YL~CR 36 (73)
.||..++ .-+..|-.+-+.|++|-
T Consensus 31 eCldn~~~~~vPeeC~al~~af~dCK 56 (73)
T KOG4114|consen 31 ECLDNPELKDVPEECIALMKAFLDCK 56 (73)
T ss_pred HHhcCCccccCcHHHHHHHHHHHHHH
Confidence 3555443 36789999999999995
No 28
>PF02320 UCR_hinge: Ubiquinol-cytochrome C reductase hinge protein; InterPro: IPR023184 The ubiquinol-cytochrome C reductase complex (cytochrome bc1 complex) is a respiratory multienzyme complex []. The bc1 complex contains 11 subunits; 3 respiratory subunits (cytochrome B, cytochrome C1, Rieske protein), 2 core proteins and 6 low molecular weight proteins. This family represents the 'hinge' protein of the complex which is thought to mediate formation of the cytochrome c1 and cytochrome c complex. Proteins in this entry from an alpha-helical hairpin. This entry represents the structural domain found in these proteins.; PDB: 1BCC_H 1SQP_H 1SQB_H 1BE3_H 2A06_U 1L0L_H 2BCC_H 2FYU_H 1PPJ_U 2YBB_H ....
Probab=35.41 E-value=68 Score=19.44 Aligned_cols=34 Identities=21% Similarity=0.443 Sum_probs=27.5
Q ss_pred ccHHHHHHHHHHHHhc---CCCChHHHHHHHHHhhch
Q 035107 3 QCDLEKKDYIGCLKSS---GHQSENCRIFSKKYLECR 36 (73)
Q Consensus 3 eCk~~m~~Yl~CLk~~---~~~~~~CR~laK~YL~CR 36 (73)
.|......|-.|..+. .+..+.|-..--+|+.|.
T Consensus 16 ~C~~~~~~y~~C~eRV~~~~~~~e~C~ee~fd~~hCv 52 (65)
T PF02320_consen 16 KCAKLKHHYDECVERVNSRSETKEDCVEEYFDLVHCV 52 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHCSSSSG-SHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH
Confidence 5889999999999987 334579999999999884
No 29
>PF07802 GCK: GCK domain; InterPro: IPR012891 This domain is found in proteins carrying other domains known to be involved in intracellular signalling pathways (such as IPR001806 from INTERPRO) indicating that it might also be involved in these pathways. It has 4 highly conserved cysteine residues, suggesting that it can bind zinc ions. Moreover, it is found repeated in some members of this family (such as Q9LMF3 from SWISSPROT); this may indicate that these domains are able to interact with one another, raising the possibility that this domain mediates heterodimerisation.
Probab=34.93 E-value=66 Score=20.30 Aligned_cols=34 Identities=15% Similarity=0.345 Sum_probs=24.6
Q ss_pred cccHHHHHHHHHHHHhcC-----CCChHHHHHHHHHhhc
Q 035107 2 HQCDLEKKDYIGCLKSSG-----HQSENCRIFSKKYLEC 35 (73)
Q Consensus 2 geCk~~m~~Yl~CLk~~~-----~~~~~CR~laK~YL~C 35 (73)
|-||..+.++-.|..... ....+|+...-.--.|
T Consensus 12 G~Cke~F~awe~C~~ea~~~~~~d~v~kC~e~~~~L~kC 50 (76)
T PF07802_consen 12 GGCKESFTAWEDCVDEAEKNKEEDFVEKCFEATAALRKC 50 (76)
T ss_pred CChhHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHH
Confidence 789999999999996542 2336898765555555
No 30
>PF05254 UPF0203: Uncharacterised protein family (UPF0203); InterPro: IPR007918 This is a family of small highly conserved proteins. In Saccharomyces cerevisiae (Baker's yeast) the gene YKL053C-A (MDM35) O60200 from SWISSPROT is one of the genes essential for maintenance of normal mitochondrial distribution and morphology (MDM) []; wherease in Homo sapiens (Human), p53CSV, O43715 from SWISSPROT is a direct transcriptional target for p53 and appears to be a cell-survival mediator in response to genotoxic stress including low-levels of DNA damage. It is suggested that p53CSV modulates the apoptotic pathway through interaction with HSP70 and Apaf-1 thereby inhibiting activation of procaspase-3 and procaspase-9 [].
Probab=32.40 E-value=87 Score=19.18 Aligned_cols=37 Identities=24% Similarity=0.563 Sum_probs=28.7
Q ss_pred cccHHHHHHHHHHHHhc-------CC-CChHHHHHHHHHhhchhc
Q 035107 2 HQCDLEKKDYIGCLKSS-------GH-QSENCRIFSKKYLECRMA 38 (73)
Q Consensus 2 geCk~~m~~Yl~CLk~~-------~~-~~~~CR~laK~YL~CRMd 38 (73)
-+|+.....|=+|...= |. ....|..+=+.|-+|-.+
T Consensus 7 ~eC~~lK~~YD~CFn~WfsekfLkG~~~~~~C~~~~~~Y~~Cv~~ 51 (68)
T PF05254_consen 7 PECTELKEKYDQCFNKWFSEKFLKGDSSDNECGELFKEYQQCVQK 51 (68)
T ss_pred hHHHHHHHHHHHHHHHHHHHhhhcCCCCCCcHHHHHHHHHHHHHH
Confidence 37999999999998642 23 335899999999999654
No 31
>PF04727 ELMO_CED12: ELMO/CED-12 family; InterPro: IPR006816 This entry represents the ELMO (EnguLfment and Cell MOtility) domain, which is found in a number of eukaryotic proteins involved in the cytoskeletal rearrangements required for phagocytosis of apoptotic cells and cell motility, including CED-12, ELMO-1 and ELMO-2. ELMO-1 and ELMO-2 are components of signalling pathways that regulate phagocytosis and cell migration and are mammalian orthologues of the Caenorhabditis elegans gene, ced-12 that is required for the engulfment of dying cells and cell migration. ELMO-1/2 act in association with DOCK1 and CRK. ELMO-1/2 interact with the SH3-domain of DOCK1 via an SH3-binding site to enhance the guanine nucleotide exchange factor (GEF) activity of DOCK1. ELMO-1/2 could be part of a complex with DOCK1 and Rac1 that could be required to activate Rac Rho small GTPases. Regulatory GTPases in the Ras superfamily employ a cycle of alternating GTP binding and hydrolysis, controlled by guanine nucleotide exchange factors and GTPase-activating proteins (GAPs), as essential features of their actions in cells. Within the Ras superfamily, the Arf family is composed of 30 members, including 22 Arf-like (Arl) proteins. The ELMO domain has been proposed to be a GAP domain for ARL2 and other members of the Arf family [].; GO: 0006909 phagocytosis, 0005856 cytoskeleton
Probab=30.44 E-value=19 Score=24.24 Aligned_cols=15 Identities=33% Similarity=0.598 Sum_probs=11.2
Q ss_pred ChhhhcccCCCCCCC
Q 035107 43 AKQDLSELGFRNEGD 57 (73)
Q Consensus 43 ~kdd~~~LGf~~~~~ 57 (73)
.-+.|+.|||...++
T Consensus 42 ~~~~W~~lGFQ~~dP 56 (170)
T PF04727_consen 42 ISEHWKELGFQGEDP 56 (170)
T ss_pred CccHHHHhCCCCCCc
Confidence 346999999985544
No 32
>KOG3468 consensus NADH:ubiquinone oxidoreductase, NDUFB7/B18 subunit [Energy production and conversion]
Probab=27.64 E-value=35 Score=23.76 Aligned_cols=37 Identities=14% Similarity=0.143 Sum_probs=31.8
Q ss_pred ccHHHHHHHHHHHHhcCCCChHHHHHHHHHhhchhcc
Q 035107 3 QCDLEKKDYIGCLKSSGHQSENCRIFSKKYLECRMAK 39 (73)
Q Consensus 3 eCk~~m~~Yl~CLk~~~~~~~~CR~laK~YL~CRMd~ 39 (73)
-|-.+.+.|++|-..+-...-+|-+.--.|..|--+-
T Consensus 56 yCAH~lI~l~kCr~~~fp~~~kC~~erh~~dkCEyed 92 (128)
T KOG3468|consen 56 YCAHLLIPLNKCRQDEFPFPWKCEDERHVYDKCEYED 92 (128)
T ss_pred HHHHHHHHHHHhhcccCCcchhccccccchhhhhHHH
Confidence 4888899999999999888899999999999995543
No 33
>PF03392 OS-D: Insect pheromone-binding family, A10/OS-D; InterPro: IPR005055 A class of small (14-20 Kd) water-soluble proteins, called odorant binding proteins (OBPs), first discovered in the insect sensillar lymph but also in the mucus of vertebrates, is postulated to mediate the solubilisation of hydrophobic odorant molecules, and thereby to facilitate their transport to the receptor neurons. The product of a gene expressed in the olfactory system of Drosophila melanogaster (Fruit fly), OS-D, shares features common to vertebrate odorant-binding proteins, but has a primary structure unlike odorant-binding proteins []. OS-D derivatives have subsequently been found in chemosensory organs of phylogenetically distinct insects, including cockroaches, phasmids and moths, suggesting that OS-D-like proteins seem to be conserved in the insect phylum.; PDB: 1KX9_A 1N8U_A 1KX8_A 1K19_A 1N8V_A 2GVS_A 2JNT_A.
Probab=25.48 E-value=82 Score=20.21 Aligned_cols=21 Identities=38% Similarity=0.635 Sum_probs=12.1
Q ss_pred HHHHHHHHHHhcCCCChHHHHHHHH
Q 035107 7 EKKDYIGCLKSSGHQSENCRIFSKK 31 (73)
Q Consensus 7 ~m~~Yl~CLk~~~~~~~~CR~laK~ 31 (73)
.+..|+.||-..+ .|-..+++
T Consensus 19 l~~~y~~Clldkg----pCt~~~~~ 39 (95)
T PF03392_consen 19 LLKSYIDCLLDKG----PCTPEGKE 39 (95)
T ss_dssp HHHHHHHHHTSSS----TSHHHHHH
T ss_pred HHHHHHHHHhcCC----CCCHHHHH
Confidence 4566777775444 56555544
No 34
>PF07956 DUF1690: Protein of Unknown function (DUF1690) ; InterPro: IPR012471 Family of uncharacterised fungal proteins.
Probab=24.99 E-value=1.3e+02 Score=20.65 Aligned_cols=33 Identities=12% Similarity=0.315 Sum_probs=27.4
Q ss_pred ccHHHHHHHHHHHHhcCCCChHHHHHHHHHhhc
Q 035107 3 QCDLEKKDYIGCLKSSGHQSENCRIFSKKYLEC 35 (73)
Q Consensus 3 eCk~~m~~Yl~CLk~~~~~~~~CR~laK~YL~C 35 (73)
+++.+-..-.+||+.|..-+-.|-.+...+=.|
T Consensus 108 ~v~~aR~~vv~CL~~N~~rPLnCw~EVe~FKk~ 140 (142)
T PF07956_consen 108 EVEKARSAVVRCLRENDGRPLNCWEEVEAFKKE 140 (142)
T ss_pred hhHHHHHHHHHHHHHCCCCCCchHHHHHHHHHH
Confidence 567777888999999999999999988776444
No 35
>PF11001 DUF2841: Protein of unknown function (DUF2841); InterPro: IPR021264 This family of proteins with unknown function are all present in yeast.
Probab=22.75 E-value=1.8e+02 Score=19.92 Aligned_cols=25 Identities=24% Similarity=0.534 Sum_probs=17.4
Q ss_pred HHHHHHHHHhcCCCChHHHHHHHHHhh
Q 035107 8 KKDYIGCLKSSGHQSENCRIFSKKYLE 34 (73)
Q Consensus 8 m~~Yl~CLk~~~~~~~~CR~laK~YL~ 34 (73)
..-|-++++. -+...||..||+|.+
T Consensus 10 ~~yy~~~F~~--lqQ~~Ck~IAKawIK 34 (126)
T PF11001_consen 10 RAYYESAFKA--LQQVNCKQIAKAWIK 34 (126)
T ss_pred HHHHHHHHHH--cChhHHHHHHHHHHH
Confidence 3445555554 456789999999985
No 36
>PF12162 STAT1_TAZ2bind: STAT1 TAZ2 binding domain; InterPro: IPR022752 This entry represents the C-terminal domain of STAT1, which selectively binds the TAZ2 domain of CRB (CREB-binding protein) []. This group of eukaryotic proteins is approximately 20 amino acids in length, and is found in association with PF02865 from PFAM, PF00017 from PFAM, PF01017 from PFAM, PF02864 from PFAM. By binding to CRB, it becomes a transcriptional activator and can initiate transcription of certain genes. ; GO: 0003700 sequence-specific DNA binding transcription factor activity; PDB: 2KA6_B.
Probab=21.36 E-value=29 Score=17.75 Aligned_cols=9 Identities=44% Similarity=0.685 Sum_probs=6.5
Q ss_pred cChhhhccc
Q 035107 42 MAKQDLSEL 50 (73)
Q Consensus 42 M~kdd~~~L 50 (73)
|.+|||.+|
T Consensus 10 MSPddy~~l 18 (23)
T PF12162_consen 10 MSPDDYDEL 18 (23)
T ss_dssp S-HHHHHHH
T ss_pred CCHHHHHHH
Confidence 788998876
Done!