Query 035183
Match_columns 71
No_of_seqs 104 out of 132
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 09:53:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035183.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035183hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02755 complex I subunit 100.0 9.8E-35 2.1E-39 177.0 4.5 71 1-71 1-71 (71)
2 PF07225 NDUF_B4: NADH-ubiquin 99.8 2.7E-21 5.8E-26 128.5 5.4 65 6-70 54-121 (125)
3 PF06596 PsbX: Photosystem II 61.5 15 0.00033 20.1 3.0 29 31-59 5-36 (39)
4 PF08475 Baculo_VP91_N: Viral 51.0 12 0.00025 26.6 1.8 26 35-60 2-27 (183)
5 PF05656 DUF805: Protein of un 49.6 19 0.00041 22.2 2.5 27 25-51 1-27 (120)
6 PF10716 NdhL: NADH dehydrogen 49.3 19 0.00042 22.5 2.4 21 34-54 22-42 (81)
7 PF12515 CaATP_NAI: Ca2+-ATPas 43.9 21 0.00046 20.2 1.8 22 12-33 17-41 (47)
8 PF07172 GRP: Glycine rich pro 41.9 46 0.001 20.9 3.4 25 32-56 4-28 (95)
9 PF12823 DUF3817: Domain of un 40.3 24 0.00052 21.9 1.9 27 24-51 59-85 (92)
10 PF02939 UcrQ: UcrQ family; I 38.2 95 0.0021 19.0 4.4 22 32-54 39-60 (80)
11 PF05371 Phage_Coat_Gp8: Phage 37.5 64 0.0014 18.6 3.2 27 32-58 21-47 (52)
12 PF03804 DUF325: Viral domain 36.1 19 0.00041 22.0 0.9 20 25-44 39-58 (71)
13 PF12794 MscS_TM: Mechanosensi 34.7 42 0.00091 25.0 2.7 32 23-54 39-70 (340)
14 PF04088 Peroxin-13_N: Peroxin 33.3 46 0.00099 22.8 2.5 44 10-53 103-158 (158)
15 PF10582 Connexin_CCC: Gap jun 31.8 50 0.0011 19.7 2.2 24 28-51 38-61 (67)
16 PF12365 DUF3649: Protein of u 30.3 81 0.0018 15.8 2.8 23 29-52 2-24 (28)
17 PF07109 Mg-por_mtran_C: Magne 30.0 46 0.001 21.3 2.0 25 19-43 22-46 (97)
18 PF09446 VMA21: VMA21-like dom 29.8 88 0.0019 18.2 3.0 22 35-56 9-30 (66)
19 PF09777 OSTMP1: Osteopetrosis 27.8 64 0.0014 23.2 2.6 22 33-54 190-212 (237)
20 PLN00088 predicted protein; Pr 27.4 20 0.00044 24.1 -0.0 34 26-59 89-124 (127)
21 KOG0721 Molecular chaperone (D 26.9 71 0.0015 23.5 2.7 37 22-59 61-97 (230)
22 PLN02177 glycerol-3-phosphate 26.2 48 0.001 26.4 1.9 16 26-41 238-253 (497)
23 PF10960 DUF2762: Protein of u 25.3 31 0.00067 20.8 0.5 23 34-56 9-31 (71)
24 KOG4617 Uncharacterized conser 24.4 1.1E+02 0.0023 22.7 3.3 22 33-54 197-218 (249)
25 PF05814 DUF843: Baculovirus p 23.0 90 0.0019 19.6 2.3 18 49-66 43-60 (83)
26 TIGR00985 3a0801s04tom mitocho 22.9 1.1E+02 0.0024 20.9 2.9 23 35-57 8-30 (148)
27 PF03605 DcuA_DcuB: Anaerobic 22.4 1.7E+02 0.0037 22.9 4.1 51 5-55 189-245 (364)
28 PLN02499 glycerol-3-phosphate 22.2 63 0.0014 26.1 1.9 16 26-41 225-240 (498)
29 PF02937 COX6C: Cytochrome c o 21.9 1.3E+02 0.0028 18.1 2.8 25 28-52 15-39 (73)
30 PF05545 FixQ: Cbb3-type cytoc 21.4 1.5E+02 0.0033 15.9 2.8 11 41-51 19-29 (49)
31 cd00925 Cyt_c_Oxidase_VIa Cyto 20.9 1.4E+02 0.0031 18.6 2.9 23 33-55 14-36 (86)
32 cd00927 Cyt_c_Oxidase_VIc Cyto 20.3 1.5E+02 0.0032 18.0 2.8 30 28-57 13-42 (70)
33 PF06024 DUF912: Nucleopolyhed 20.1 42 0.0009 21.0 0.4 7 51-57 85-91 (101)
34 PF08260 Kinin: Insect kinin p 20.0 12 0.00026 14.1 -1.3 7 10-16 1-7 (8)
No 1
>PLN02755 complex I subunit
Probab=100.00 E-value=9.8e-35 Score=176.97 Aligned_cols=71 Identities=85% Similarity=1.474 Sum_probs=70.2
Q ss_pred CCCCCCCccCHHHHHHHHhhhccccceeecchhHHHHHHHHhHHhHHhHhHhhhhhhhhhhhcCCCccCCC
Q 035183 1 MGGGMEANKNRFIEEWGAARETLEHNFRWTRRNLAIVGLFGIAVPVFIYKGIVKEFHMQDEDAGRPYRKFL 71 (71)
Q Consensus 1 MaG~~~l~~dpalerw~~~ren~~~~FR~Tprt~~~~~~~~v~vP~~~yy~~~~~~~~~d~~~G~~~r~f~ 71 (71)
|||++++.+|+.||.|++||||+|+||||||||++++++||++||+++||+++.||+.||.++|+|+|+|+
T Consensus 1 m~gg~~~~~Nk~iE~~~~~reNrekyFRWT~Rt~~i~~ifgv~VP~liy~giv~eF~~~d~~~grp~~kf~ 71 (71)
T PLN02755 1 MGGGMEVNKNKFIEEWGAARENLEFNFRWTRRNLAVVGIFGIAVPILVYKGIVREFHMQDEDAGRPERKFL 71 (71)
T ss_pred CCCCcccCccHHHHHHHHHHHHHHHheecccchhhhhhhhhhhhhHHhhhhhhhhhcccchhccCCccccC
Confidence 89999999999999999999999999999999999999999999999999999999999999999999996
No 2
>PF07225 NDUF_B4: NADH-ubiquinone oxidoreductase B15 subunit (NDUFB4); InterPro: IPR009866 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 contains human NADH-ubiquinone oxidoreductase subunit NDUFB4 and related sequences.; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0005739 mitochondrion
Probab=99.84 E-value=2.7e-21 Score=128.45 Aligned_cols=65 Identities=20% Similarity=0.283 Sum_probs=60.5
Q ss_pred CCccCHHHHHHHHhhh-ccccceeecchhHHHHHHHHhHHhHHhHhHhhhhhhhhh--hhcCCCccCC
Q 035183 6 EANKNRFIEEWGAARE-TLEHNFRWTRRNLAIVGLFGIAVPVFIYKGIVKEFHMQD--EDAGRPYRKF 70 (71)
Q Consensus 6 ~l~~dpalerw~~~re-n~~~~FR~Tprt~~~~~~~~v~vP~~~yy~~~~~~~~~d--~~~G~~~r~f 70 (71)
+++.||||+||++++. |+|+||||||||+++++++++++.+++|+++++|+|.++ ++.|+.+|.|
T Consensus 54 gli~DPAL~Rw~~a~~~~~y~~FRpTPktsllg~~~~v~P~i~~~~~~KtdRD~~E~~~r~G~~dR~f 121 (125)
T PF07225_consen 54 GLIFDPALQRWAYARAVNIYEYFRPTPKTSLLGLGFGVVPLIFYYYVLKTDRDRKEKLIRTGKLDRPF 121 (125)
T ss_pred CccCChHHHHHHHHHHhCcccccccCchHHHHHHHHHHHHHHHHHhhhccchhHHHHHHhcCccceee
Confidence 5899999999998888 999999999999999999999988888999999988876 5999999998
No 3
>PF06596 PsbX: Photosystem II reaction centre X protein (PsbX); InterPro: IPR009518 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. The low molecular weight transmembrane protein PsbX found in PSII is associated with the oxygen-evolving complex. Its expression is light-regulated. PsbX appears to be involved in the regulation of the amount of PSII [], and may be involved in the binding or turnover of quinone molecules at the Qb (PsbA) site [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0016020 membrane; PDB: 3ARC_x 3A0H_X 3A0B_X 3PRR_X 1S5L_x 4FBY_j 3PRQ_X 3KZI_X 3BZ2_X 3BZ1_X.
Probab=61.52 E-value=15 Score=20.06 Aligned_cols=29 Identities=17% Similarity=0.158 Sum_probs=19.0
Q ss_pred chhHHHHHHHHh---HHhHHhHhHhhhhhhhh
Q 035183 31 RRNLAIVGLFGI---AVPVFIYKGIVKEFHMQ 59 (71)
Q Consensus 31 prt~~~~~~~~v---~vP~~~yy~~~~~~~~~ 59 (71)
-+|.+.++++|+ ++|+....++.+.+|+-
T Consensus 5 L~nfl~Sl~aG~~iVv~~i~~ali~VSq~D~v 36 (39)
T PF06596_consen 5 LSNFLLSLVAGAVIVVIPIAGALIFVSQFDRV 36 (39)
T ss_dssp HHHHHHHHHHHH-HHHHHHHHHHHHHHCCS--
T ss_pred HHHHHHHHHhhhhhhhhhhhhheEEEeccCcc
Confidence 356777777776 66777777777755543
No 4
>PF08475 Baculo_VP91_N: Viral capsid protein 91 N-terminal; InterPro: IPR013682 This domain is found in Baculoviridae including the nucleopolyhedrovirus at the N terminus of the viral capsid protein 91 (VP91) [].
Probab=50.96 E-value=12 Score=26.59 Aligned_cols=26 Identities=19% Similarity=0.346 Sum_probs=20.4
Q ss_pred HHHHHHHhHHhHHhHhHhhhhhhhhh
Q 035183 35 AIVGLFGIAVPVFIYKGIVKEFHMQD 60 (71)
Q Consensus 35 ~~~~~~~v~vP~~~yy~~~~~~~~~d 60 (71)
++.++.++++-.++|.+++.||++++
T Consensus 2 Llvai~l~iif~i~y~~I~~dFde~~ 27 (183)
T PF08475_consen 2 LLVAILLIIIFLIYYLIIYNDFDENE 27 (183)
T ss_pred chhHHHHHHHHHHHHHhhccccchHH
Confidence 45667777777888888999998876
No 5
>PF05656 DUF805: Protein of unknown function (DUF805); InterPro: IPR008523 This entry is represented by Lactobacillus phage LBR48, DUF805. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; GO: 0016021 integral to membrane
Probab=49.58 E-value=19 Score=22.19 Aligned_cols=27 Identities=11% Similarity=0.091 Sum_probs=20.9
Q ss_pred cceeecchhHHHHHHHHhHHhHHhHhH
Q 035183 25 HNFRWTRRNLAIVGLFGIAVPVFIYKG 51 (71)
Q Consensus 25 ~~FR~Tprt~~~~~~~~v~vP~~~yy~ 51 (71)
|+|.|+-|+++..+++..+...++..+
T Consensus 1 ~~f~f~GR~~R~~fw~~~l~~~~~~~~ 27 (120)
T PF05656_consen 1 NYFNFKGRISRKEFWWFFLINILIFIL 27 (120)
T ss_pred CcccCcCCcCHHHHHHHHHHHHHHHHH
Confidence 578888888888888887776666555
No 6
>PF10716 NdhL: NADH dehydrogenase transmembrane subunit; InterPro: IPR019654 NAD(P)H-quinone oxidoreductase subunit L (NdhL) is a component of the NDH-1L complex that is one of the proton-pumping NADH:ubiquinone oxidoreductases that catalyse the electron transfer from NADH to ubiquinone linked with proton translocation across the membrane. NDH-1L is essential for photoheterotrophic cell growth. NdhL appears to contain two transmembrane helices and it is necessary for the functioning of though not the correct assembly of the NDH-1 complex in Synechocystis 6803. The conservation between cyanobacteria and green plants suggests that chloroplast NDH-1 complexes contain related subunits []. ; GO: 0016655 oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor, 0055114 oxidation-reduction process
Probab=49.28 E-value=19 Score=22.51 Aligned_cols=21 Identities=33% Similarity=0.618 Sum_probs=16.3
Q ss_pred HHHHHHHHhHHhHHhHhHhhh
Q 035183 34 LAIVGLFGIAVPVFIYKGIVK 54 (71)
Q Consensus 34 ~~~~~~~~v~vP~~~yy~~~~ 54 (71)
+.++++|.+++|.++|+-..+
T Consensus 22 ~~l~~~YLlVvP~~l~~wm~~ 42 (81)
T PF10716_consen 22 AALAGLYLLVVPLILYFWMNK 42 (81)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 457888999999999876544
No 7
>PF12515 CaATP_NAI: Ca2+-ATPase N terminal autoinhibitory domain; InterPro: IPR024750 This entry represents the N-terminal autoinhibitory calmodulin-binding domain characteristic of certain calcium-transporting ATPases []. This domain binds calmodulin in a calcium-dependent fashion and has a conserved RRFR sequence motif. There are two completely conserved residues (F and W) that may be functionally important.; GO: 0005516 calmodulin binding
Probab=43.88 E-value=21 Score=20.17 Aligned_cols=22 Identities=23% Similarity=0.469 Sum_probs=16.8
Q ss_pred HHHHHHHhh---hccccceeecchh
Q 035183 12 FIEEWGAAR---ETLEHNFRWTRRN 33 (71)
Q Consensus 12 alerw~~~r---en~~~~FR~Tprt 33 (71)
++.+|-.+= .|.+..||+|.--
T Consensus 17 ~l~rWR~a~~lv~N~~RRFR~~~dL 41 (47)
T PF12515_consen 17 ALRRWRQAVGLVKNARRRFRYTADL 41 (47)
T ss_pred HHHHHHHHhHHhccccceeeecccH
Confidence 567777665 4999999999743
No 8
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=41.87 E-value=46 Score=20.88 Aligned_cols=25 Identities=16% Similarity=0.291 Sum_probs=11.3
Q ss_pred hhHHHHHHHHhHHhHHhHhHhhhhh
Q 035183 32 RNLAIVGLFGIAVPVFIYKGIVKEF 56 (71)
Q Consensus 32 rt~~~~~~~~v~vP~~~yy~~~~~~ 56 (71)
|++++..++.+++.++.--++..|.
T Consensus 4 K~~llL~l~LA~lLlisSevaa~~~ 28 (95)
T PF07172_consen 4 KAFLLLGLLLAALLLISSEVAAREL 28 (95)
T ss_pred hHHHHHHHHHHHHHHHHhhhhhHHh
Confidence 4444444444444444444444443
No 9
>PF12823 DUF3817: Domain of unknown function (DUF3817); InterPro: IPR023845 This domain is associated with, strictly bacterial integral membrane proteins. It occurs in proteins that on rare occasions are fused to transporter domains such as the major facilitator superfamily domain. Of three invariant residues, two occur as a His-Gly dipeptide in the middle of three predicted transmembrane helices.
Probab=40.32 E-value=24 Score=21.94 Aligned_cols=27 Identities=15% Similarity=0.365 Sum_probs=20.9
Q ss_pred ccceeecchhHHHHHHHHhHHhHHhHhH
Q 035183 24 EHNFRWTRRNLAIVGLFGIAVPVFIYKG 51 (71)
Q Consensus 24 ~~~FR~Tprt~~~~~~~~v~vP~~~yy~ 51 (71)
-..-||+.+.+..+++.++ +|++..+.
T Consensus 59 ~~~~rW~~~~~~~~llas~-iPfg~f~~ 85 (92)
T PF12823_consen 59 ASKYRWSLKRTLLALLASV-IPFGTFWF 85 (92)
T ss_pred HHHcCCChHHHHHHHHHHc-ccccHHHH
Confidence 3456899999999887776 88887664
No 10
>PF02939 UcrQ: UcrQ family; InterPro: IPR004205 The ubiquinol-cytochrome C reductase complex (cytochrome bc1 complex) is a respiratory multi-enzyme complex [], which recognises a mitochondrial targeting presequence. The bc1 complex contains 11 subunits: 3 respiratory subunits (cytochrome b, cytochrome c1 and Rieske protein), 2 core proteins and 6 low molecular weight proteins. This family represents the 9.5 kDa subunit of the complex. This subunit together with cytochrome B binds to ubiquinone.; GO: 0008121 ubiquinol-cytochrome-c reductase activity; PDB: 1L0N_G 1SQQ_G 1PP9_G 1PPJ_T 2FYU_G 2BCC_G 1BCC_G 2A06_G 1NTZ_G 2YBB_g ....
Probab=38.15 E-value=95 Score=18.98 Aligned_cols=22 Identities=23% Similarity=0.167 Sum_probs=12.9
Q ss_pred hhHHHHHHHHhHHhHHhHhHhhh
Q 035183 32 RNLAIVGLFGIAVPVFIYKGIVK 54 (71)
Q Consensus 32 rt~~~~~~~~v~vP~~~yy~~~~ 54 (71)
|.+.-.++++ ++|+++.|.++.
T Consensus 39 RR~~~q~~~v-~ppfi~~y~i~~ 60 (80)
T PF02939_consen 39 RRFRSQVLYV-APPFIVGYLIYD 60 (80)
T ss_dssp HHHHHHHHHH-HHHHHHHHHHHH
T ss_pred HHHHHHhHHH-hhHHHHHHHHHH
Confidence 3444445554 488887776554
No 11
>PF05371 Phage_Coat_Gp8: Phage major coat protein, Gp8; InterPro: IPR008020 The major coat protein in the capsid of filamentous bacteriophage forms a helical assembly of about 7000 identical protomers, with each protomer comprised of 46 amino acids, after the cleavage of the signal peptide. Each protomer forms a slightly curved helix that combines to form a tubular structure that encapsulates the viral DNA [].; PDB: 1IFK_A 2C0W_A 2HI5_A 1FDM_A 1IFJ_A 2C0X_A 1IFI_A 1IFD_A 1MZT_A 1IFL_A ....
Probab=37.45 E-value=64 Score=18.65 Aligned_cols=27 Identities=15% Similarity=-0.146 Sum_probs=21.8
Q ss_pred hhHHHHHHHHhHHhHHhHhHhhhhhhh
Q 035183 32 RNLAIVGLFGIAVPVFIYKGIVKEFHM 58 (71)
Q Consensus 32 rt~~~~~~~~v~vP~~~yy~~~~~~~~ 58 (71)
-|..++..|.+++|+....++..=|++
T Consensus 21 At~~i~~aw~vvv~v~gafigirlFKK 47 (52)
T PF05371_consen 21 ATDLIGYAWPVVVLVTGAFIGIRLFKK 47 (52)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 477899999999999988877665554
No 12
>PF03804 DUF325: Viral domain of unknown function; InterPro: IPR003225 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf4. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=36.07 E-value=19 Score=21.97 Aligned_cols=20 Identities=20% Similarity=0.408 Sum_probs=17.6
Q ss_pred cceeecchhHHHHHHHHhHH
Q 035183 25 HNFRWTRRNLAIVGLFGIAV 44 (71)
Q Consensus 25 ~~FR~Tprt~~~~~~~~v~v 44 (71)
+.|.|+-||+++++|..+-|
T Consensus 39 ~RFgf~dRnalv~ACM~vnV 58 (71)
T PF03804_consen 39 RRFGFLDRNALVSACMAVNV 58 (71)
T ss_pred HHhCCCcHHHHHHHHHhhee
Confidence 57999999999999988754
No 13
>PF12794 MscS_TM: Mechanosensitive ion channel inner membrane domain 1
Probab=34.68 E-value=42 Score=25.05 Aligned_cols=32 Identities=19% Similarity=0.283 Sum_probs=27.6
Q ss_pred cccceeecchhHHHHHHHHhHHhHHhHhHhhh
Q 035183 23 LEHNFRWTRRNLAIVGLFGIAVPVFIYKGIVK 54 (71)
Q Consensus 23 ~~~~FR~Tprt~~~~~~~~v~vP~~~yy~~~~ 54 (71)
..-.|..||++...+++..+-.|.++..++..
T Consensus 39 ~~D~~~~T~~al~~tll~alp~pl~~~~~g~~ 70 (340)
T PF12794_consen 39 RQDSFSHTPRALLLTLLLALPLPLLLLAIGYL 70 (340)
T ss_pred cCCCchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35679999999999999999999998877654
No 14
>PF04088 Peroxin-13_N: Peroxin 13, N-terminal region; InterPro: IPR007223 Peroxin-13 is a component of the peroxisomal translocation machinery with Peroxin-14 and Peroxin-17. Both termini of Peroxin-13 are oriented to the cytosol. It is required for peroxisomal association of peroxin-14 []. The proteins also contain an SH3 domain (IPR001452 from INTERPRO).; GO: 0016560 protein import into peroxisome matrix, docking, 0005777 peroxisome, 0016021 integral to membrane
Probab=33.31 E-value=46 Score=22.83 Aligned_cols=44 Identities=14% Similarity=0.096 Sum_probs=28.9
Q ss_pred CHHHHHHHHhhhc------------cccceeecchhHHHHHHHHhHHhHHhHhHhh
Q 035183 10 NRFIEEWGAARET------------LEHNFRWTRRNLAIVGLFGIAVPVFIYKGIV 53 (71)
Q Consensus 10 dpalerw~~~ren------------~~~~FR~Tprt~~~~~~~~v~vP~~~yy~~~ 53 (71)
++..+.|....++ --+.=+.+.+.+++-+...+++|.+++.+++
T Consensus 103 ~~~~~~f~~f~~~~~~~~~~~~~~~~~~~~~~s~~PlllF~~~v~G~PyLi~Klik 158 (158)
T PF04088_consen 103 SLTEDEFSKFESEQNALASNANGQPSGKRPKPSSKPLLLFLAAVFGLPYLIWKLIK 158 (158)
T ss_pred CCCHHHHHHHHhccccccccccccccCCCCCCCcccHHHHHHHHHHHHHHHHHHhC
Confidence 4555666555543 1245566667777777778888999988764
No 15
>PF10582 Connexin_CCC: Gap junction channel protein cysteine-rich domain; InterPro: IPR019570 The connexins are a family of integral membrane proteins that oligomerise to form intercellular channels that are clustered at gap junctions. These channels are specialised sites of cell-cell contact that allow the passage of ions, intracellular metabolites and messenger molecules (with molecular weight less than 1-2kDa) from the cytoplasm of one cell to its opposing neighbours. They are found in almost all vertebrate cell types, and somewhat similar proteins have been cloned from plant species. Invertebrates utilise a different family of molecules, innexins, that share a similar predicted secondary structure to the vertebrate connexins, but have no sequence identity to them []. Vertebrate gap junction channels are thought to participate in diverse biological functions. For instance, in the heart they permit the rapid cell-cell transfer of action potentials, ensuring coordinated contraction of the cardiomyocytes. They are also responsible for neurotransmission at specialised 'electrical' synapses. In non-excitable tissues, such as the liver, they may allow metabolic cooperation between cells. In the brain, glial cells are extensively-coupled by gap junctions; this allows waves of intracellular Ca2+ to propagate through nervous tissue, and may contribute to their ability to spatially-buffer local changes in extracellular K+ concentration []. The connexin protein family is encoded by at least 13 genes in rodents, with many homologues cloned from other species. They show overlapping tissue expression patterns, most tissues expressing more than one connexin type. Their conductances, permeability to different molecules, phosphorylation and voltage-dependence of their gating, have been found to vary. Possible communication diversity is increased further by the fact that gap junctions may be formed by the association of different connexin isoforms from apposing cells. However, in vitro studies have shown that not all possible combinations of connexins produce active channels [, ]. Hydropathy analysis predicts that all cloned connexins share a common transmembrane (TM) topology. Each connexin is thought to contain 4 TM domains, with two extracellular and three cytoplasmic regions. This model has been validated for several of the family members by in vitro biochemical analysis. Both N- and C-termini are thought to face the cytoplasm, and the third TM domain has an amphipathic character, suggesting that it contributes to the lining of the formed-channel. Amino acid sequence identity between the isoforms is ~50-80%, with the TM domains being well conserved. Both extracellular loops contain characteristically conserved cysteine residues, which likely form intramolecular disulphide bonds. By contrast, the single putative intracellular loop (between TM domains 2 and 3) and the cytoplasmic C terminus are highly variable among the family members. Six connexins are thought to associate to form a hemi-channel, or connexon. Two connexons then interact (likely via the extracellular loops of their connexins) to form the complete gap junction channel. NH2-*** *** *************-COOH ** ** ** ** ** ** ** ** Cytoplasmic ---**----**-----**----**---------------- ** ** ** ** Membrane ** ** ** ** ---**----**-----**----**---------------- ** ** ** ** Extracellular ** ** ** ** ** ** Two sets of nomenclature have been used to identify the connexins. The first, and most commonly used, classifies the connexin molecules according to molecular weight, such as connexin43 (abbreviated to Cx43), indicating a connexin of molecular weight close to 43kDa. However, studies have revealed cases where clear functional homologues exist across species that have quite different molecular masses; therefore, an alternative nomenclature was proposed based on evolutionary considerations, which divides the family into two major subclasses, alpha and beta, each with a number of members []. Due to their ubiquity and overlapping tissue distributions, it has proved difficult to elucidate the functions of individual connexin isoforms. To circumvent this problem, particular connexin-encoding genes have been subjected to targeted-disruption in mice, and the phenotype of the resulting animals investigated. Around half the connexin isoforms have been investigated in this manner []. Further insight into the functional roles of connexins has come from the discovery that a number of human diseases are caused by mutations in connexin genes. For instance, mutations in Cx32 give rise to a form of inherited peripheral neuropathy called X-linked dominant Charcot-Marie-Tooth disease []. Similarly, mutations in Cx26 are responsible for both autosomal recessive and dominant forms of nonsyndromic deafness, a disorder characterised by hearing loss, with no apparent effects on other organ systems. This entry represents the cysteine rich domain of the connexins.; PDB: 2ZW3_F.
Probab=31.84 E-value=50 Score=19.71 Aligned_cols=24 Identities=13% Similarity=0.264 Sum_probs=19.3
Q ss_pred eecchhHHHHHHHHhHHhHHhHhH
Q 035183 28 RWTRRNLAIVGLFGIAVPVFIYKG 51 (71)
Q Consensus 28 R~Tprt~~~~~~~~v~vP~~~yy~ 51 (71)
|+|-||..+.+++++....++--+
T Consensus 38 RPtEKtIfl~fM~~~s~vsi~L~l 61 (67)
T PF10582_consen 38 RPTEKTIFLIFMFAVSCVSILLNL 61 (67)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCchhhhHHHHHHHHHHHHHHHHH
Confidence 678899999999999887766443
No 16
>PF12365 DUF3649: Protein of unknown function (DUF3649) ; InterPro: IPR022109 This domain family is found in bacteria and eukaryotes, and is approximately 30 amino acids in length.
Probab=30.27 E-value=81 Score=15.80 Aligned_cols=23 Identities=13% Similarity=0.286 Sum_probs=13.8
Q ss_pred ecchhHHHHHHHHhHHhHHhHhHh
Q 035183 29 WTRRNLAIVGLFGIAVPVFIYKGI 52 (71)
Q Consensus 29 ~Tprt~~~~~~~~v~vP~~~yy~~ 52 (71)
|..|+++.. +-|+++|.++-+.+
T Consensus 2 Fa~rsa~rA-W~Gll~~a~~l~~~ 24 (28)
T PF12365_consen 2 FAARSAWRA-WLGLLLPAALLALL 24 (28)
T ss_pred cccchHHHH-HHHHHHHHHHHHHH
Confidence 456777766 44566666665543
No 17
>PF07109 Mg-por_mtran_C: Magnesium-protoporphyrin IX methyltransferase C-terminus; InterPro: IPR010940 This entry represents the C terminus (approximately 100 residues) of bacterial and eukaryotic Magnesium-protoporphyrin IX methyltransferase (2.1.1.11 from EC). This converts magnesium-protoporphyrin IX to magnesium-protoporphyrin IX metylester using S-adenosyl-L-methionine as a cofactor [].; GO: 0046406 magnesium protoporphyrin IX methyltransferase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process
Probab=29.98 E-value=46 Score=21.26 Aligned_cols=25 Identities=16% Similarity=0.197 Sum_probs=20.1
Q ss_pred hhhccccceeecchhHHHHHHHHhH
Q 035183 19 ARETLEHNFRWTRRNLAIVGLFGIA 43 (71)
Q Consensus 19 ~ren~~~~FR~Tprt~~~~~~~~v~ 43 (71)
.|.+----|-|-|||.++.+++.++
T Consensus 22 ~~t~~~~ifTfAP~T~~L~~m~~iG 46 (97)
T PF07109_consen 22 SRTRGSLIFTFAPRTPLLALMHAIG 46 (97)
T ss_pred HhccCcEEEEECCCCHHHHHHHHHh
Confidence 3445566799999999999998774
No 18
>PF09446 VMA21: VMA21-like domain; InterPro: IPR019013 The vacuolar ATPase assembly integral membrane protein VMA21 is required for the assembly of the integral membrane sector (V0 component) of the vacuolar ATPase (V-ATPase) in the endoplasmic reticulum []. This entry represents a putative short domain found in VMA21-like proteins, and which appears to contain two potential transmembrane helices.
Probab=29.77 E-value=88 Score=18.18 Aligned_cols=22 Identities=9% Similarity=0.173 Sum_probs=16.3
Q ss_pred HHHHHHHhHHhHHhHhHhhhhh
Q 035183 35 AIVGLFGIAVPVFIYKGIVKEF 56 (71)
Q Consensus 35 ~~~~~~~v~vP~~~yy~~~~~~ 56 (71)
..--+.++.+|++.|++.+.-.
T Consensus 9 l~fs~~M~~lPl~~ff~~~~~~ 30 (66)
T PF09446_consen 9 LFFSVLMFTLPLGTFFGFKYFL 30 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344567889999999988753
No 19
>PF09777 OSTMP1: Osteopetrosis-associated transmembrane protein 1 precursor; InterPro: IPR019172 Osteopetrosis-associated transmembrane protein 1 (OSTM1) is required for osteoclast and melanocyte maturation and function. Mutations in OSTM1 give rise to autosomal recessive osteopetrosis, also called autosomal recessive Albers-Schonberg disease [, ].
Probab=27.78 E-value=64 Score=23.19 Aligned_cols=22 Identities=23% Similarity=0.292 Sum_probs=12.5
Q ss_pred hHHHHHH-HHhHHhHHhHhHhhh
Q 035183 33 NLAIVGL-FGIAVPVFIYKGIVK 54 (71)
Q Consensus 33 t~~~~~~-~~v~vP~~~yy~~~~ 54 (71)
++.+++. +++++|+++|...+-
T Consensus 190 ~~~i~v~~~vl~lpv~FY~~s~~ 212 (237)
T PF09777_consen 190 TAVIAVSVFVLFLPVLFYLSSYL 212 (237)
T ss_pred hHHHHHHHHHHHHHHHHHHhhee
Confidence 3444444 444477777776554
No 20
>PLN00088 predicted protein; Provisional
Probab=27.40 E-value=20 Score=24.10 Aligned_cols=34 Identities=15% Similarity=0.025 Sum_probs=22.9
Q ss_pred ceeecchhHHHHHHHHhH--HhHHhHhHhhhhhhhh
Q 035183 26 NFRWTRRNLAIVGLFGIA--VPVFIYKGIVKEFHMQ 59 (71)
Q Consensus 26 ~FR~Tprt~~~~~~~~v~--vP~~~yy~~~~~~~~~ 59 (71)
..-++-+|.+.++++|.+ +|+.+..++.+.+|+-
T Consensus 89 gvTPSLsNFL~SLvaGgvVv~pI~~Ali~VSq~D~V 124 (127)
T PLN00088 89 GVSPSLKNLLLSVVAGGVVITVIGVAVAGVSTFDPV 124 (127)
T ss_pred CCChhHHHHHHHHHhhhhhhhhhheeeEEEeccCcc
Confidence 355677899999999865 4555555666655543
No 21
>KOG0721 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=26.93 E-value=71 Score=23.52 Aligned_cols=37 Identities=19% Similarity=0.220 Sum_probs=26.5
Q ss_pred ccccceeecchhHHHHHHHHhHHhHHhHhHhhhhhhhh
Q 035183 22 TLEHNFRWTRRNLAIVGLFGIAVPVFIYKGIVKEFHMQ 59 (71)
Q Consensus 22 n~~~~FR~Tprt~~~~~~~~v~vP~~~yy~~~~~~~~~ 59 (71)
|..+.=-||-|+..+.+.|.+ +-+++|.+...++..|
T Consensus 61 ~~~~k~~~~~~~i~lv~~W~v-~~fL~y~i~~~~~~~~ 97 (230)
T KOG0721|consen 61 KVSPKSISTKRKVFLVVGWAV-IAFLIYKIMNSRRERQ 97 (230)
T ss_pred ccCcccchhHHHHHHHHHHHH-HHHHHHHHhhhhHHhh
Confidence 444444458888888888877 7888899877765444
No 22
>PLN02177 glycerol-3-phosphate acyltransferase
Probab=26.22 E-value=48 Score=26.36 Aligned_cols=16 Identities=19% Similarity=-0.176 Sum_probs=14.5
Q ss_pred ceeecchhHHHHHHHH
Q 035183 26 NFRWTRRNLAIVGLFG 41 (71)
Q Consensus 26 ~FR~Tprt~~~~~~~~ 41 (71)
-||+||.+++..++|+
T Consensus 238 ~~~p~~~~~l~~~~~~ 253 (497)
T PLN02177 238 VQRPTPLVALLTFLWM 253 (497)
T ss_pred cCCCCHHHHHHHHHHH
Confidence 4999999999999994
No 23
>PF10960 DUF2762: Protein of unknown function (DUF2762); InterPro: IPR024405 BhlA is a SP-beta prophage-derived protein found in Bacillus subtilis [, ] and other Bacilli. A related protein, UviB, has also been described in Clostridia, where it is believed to be involved in bacteriocin secretion or immunity [, ].
Probab=25.30 E-value=31 Score=20.78 Aligned_cols=23 Identities=9% Similarity=0.193 Sum_probs=17.5
Q ss_pred HHHHHHHHhHHhHHhHhHhhhhh
Q 035183 34 LAIVGLFGIAVPVFIYKGIVKEF 56 (71)
Q Consensus 34 ~~~~~~~~v~vP~~~yy~~~~~~ 56 (71)
+..-.+|++++-.+++|+.++..
T Consensus 9 ~~sQG~fA~LFv~Ll~yvlK~~~ 31 (71)
T PF10960_consen 9 ALSQGIFAVLFVWLLFYVLKENK 31 (71)
T ss_pred HHHcCcHHHHHHHHHHHHHHHhH
Confidence 34446788888889999988864
No 24
>KOG4617 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.43 E-value=1.1e+02 Score=22.71 Aligned_cols=22 Identities=5% Similarity=-0.121 Sum_probs=15.1
Q ss_pred hHHHHHHHHhHHhHHhHhHhhh
Q 035183 33 NLAIVGLFGIAVPVFIYKGIVK 54 (71)
Q Consensus 33 t~~~~~~~~v~vP~~~yy~~~~ 54 (71)
.+++.+++.++.|++.|.....
T Consensus 197 ~~~~~~i~~LlL~a~fyl~s~~ 218 (249)
T KOG4617|consen 197 SARTEKIANLLLGAGFYLLSES 218 (249)
T ss_pred hHHHHHHHHHHHHHHHHHHHHh
Confidence 3556677777888888776544
No 25
>PF05814 DUF843: Baculovirus protein of unknown function (DUF843); InterPro: IPR008561 This family consists of several unidentified baculovirus proteins of around 85 residues long with no known function.
Probab=22.95 E-value=90 Score=19.60 Aligned_cols=18 Identities=22% Similarity=0.032 Sum_probs=13.1
Q ss_pred HhHhhhhhhhhhhhcCCC
Q 035183 49 YKGIVKEFHMQDEDAGRP 66 (71)
Q Consensus 49 yy~~~~~~~~~d~~~G~~ 66 (71)
+|.+++|..-+|.+.|+.
T Consensus 43 ~yy~kteS~~~dL~t~k~ 60 (83)
T PF05814_consen 43 VYYIKTESTPQDLQTEKA 60 (83)
T ss_pred HHHcCCCCcHHHHhhhhh
Confidence 334599999999877754
No 26
>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit.
Probab=22.86 E-value=1.1e+02 Score=20.86 Aligned_cols=23 Identities=26% Similarity=0.348 Sum_probs=17.5
Q ss_pred HHHHHHHhHHhHHhHhHhhhhhh
Q 035183 35 AIVGLFGIAVPVFIYKGIVKEFH 57 (71)
Q Consensus 35 ~~~~~~~v~vP~~~yy~~~~~~~ 57 (71)
.+++.-|++.-++++|-+|.|.+
T Consensus 8 ~~~~~ag~a~~~flgYciYFD~K 30 (148)
T TIGR00985 8 NVVIAAGIAAAAFLGYAIYFDYK 30 (148)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhh
Confidence 45566677788889999999854
No 27
>PF03605 DcuA_DcuB: Anaerobic c4-dicarboxylate membrane transporter; InterPro: IPR004668 These proteins are members of the C4-Dicarboxylate Uptake (Dcu) family. Most proteins in this family are predicted to have 12 GES predicted transmembrane regions; however the one member whose membrane topology has been experimentally determined has 10 transmembrane regions, with both the N- and C-termini localized to the periplasm []. The DcuA and DcuB proteins are involved in the transport of aspartate, malate, fumarate and succinate in many species [, , ], and are thought to function as antiporters with any two of these substrates. Since DcuA is encoded in an operon with the gene for aspartase, and DcuB is encoded in an operon with the gene for fumarase, their physiological functions may be to catalyze aspartate:fumarate and fumarate:malate exchange during the anaerobic utilization of aspartate and fumarate, respectively []. The Escherichia coli DcuA and DcuB proteins have very different expression patterns []. DcuA is constitutively expressed; DcuB is strongly induced anaerobically by FNR and C4-dicarboxylates, while it is repressed by nitrate and subject to CRP-mediated catabolite repression.; GO: 0015556 C4-dicarboxylate transmembrane transporter activity, 0015740 C4-dicarboxylate transport, 0016021 integral to membrane
Probab=22.41 E-value=1.7e+02 Score=22.86 Aligned_cols=51 Identities=14% Similarity=0.008 Sum_probs=32.9
Q ss_pred CCCccCHHHHHHHHhhh------ccccceeecchhHHHHHHHHhHHhHHhHhHhhhh
Q 035183 5 MEANKNRFIEEWGAARE------TLEHNFRWTRRNLAIVGLFGIAVPVFIYKGIVKE 55 (71)
Q Consensus 5 ~~l~~dpalerw~~~re------n~~~~FR~Tprt~~~~~~~~v~vP~~~yy~~~~~ 55 (71)
-+|.+||..++--..-+ +.+.....+|+.-+...+|.+++-+++.|.+..+
T Consensus 189 keL~~Dp~yq~rl~~g~~~~~~~~~~~~~~~~~~Ak~SV~iFl~gv~~VV~~g~f~~ 245 (364)
T PF03605_consen 189 KELDDDPEYQERLADGLVKPPIKEESTEKELPPSAKLSVLIFLLGVVAVVLYGSFPS 245 (364)
T ss_pred CccccCHHHHHHHhccccccccccccccccCChhhHHHHHHHHHHHHHHHHHHHccc
Confidence 37999999887654432 1222356667666667777777777776665554
No 28
>PLN02499 glycerol-3-phosphate acyltransferase
Probab=22.20 E-value=63 Score=26.11 Aligned_cols=16 Identities=19% Similarity=-0.041 Sum_probs=14.5
Q ss_pred ceeecchhHHHHHHHH
Q 035183 26 NFRWTRRNLAIVGLFG 41 (71)
Q Consensus 26 ~FR~Tprt~~~~~~~~ 41 (71)
-||+||.+++..++|+
T Consensus 225 ~~~ptp~~~l~~~~w~ 240 (498)
T PLN02499 225 VKRPTPATALLILLWI 240 (498)
T ss_pred cCCCCHHHHHHHHHHH
Confidence 4999999999999994
No 29
>PF02937 COX6C: Cytochrome c oxidase subunit VIc; InterPro: IPR004204 Cytochrome c oxidase, a 13 subunit complex, 1.9.3.1 from EC is the terminal oxidase in the mitochondrial electron transport chain. This family is composed of cytochrome c oxidase subunit VIc.; GO: 0004129 cytochrome-c oxidase activity; PDB: 3AG4_I 2DYS_V 3ASO_I 2EIK_V 2EIM_I 1OCC_V 1V54_V 1OCO_V 3ASN_V 2EIL_I ....
Probab=21.85 E-value=1.3e+02 Score=18.14 Aligned_cols=25 Identities=12% Similarity=0.294 Sum_probs=18.1
Q ss_pred eecchhHHHHHHHHhHHhHHhHhHh
Q 035183 28 RWTRRNLAIVGLFGIAVPVFIYKGI 52 (71)
Q Consensus 28 R~Tprt~~~~~~~~v~vP~~~yy~~ 52 (71)
+-+.+++..+++-.+++++++++..
T Consensus 15 ~~l~~~i~~a~~ls~~~~~~~kf~v 39 (73)
T PF02937_consen 15 KRLKRHIVVAFVLSLGVAAAYKFGV 39 (73)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456788888888887877776654
No 30
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=21.36 E-value=1.5e+02 Score=15.87 Aligned_cols=11 Identities=0% Similarity=-0.293 Sum_probs=4.1
Q ss_pred HhHHhHHhHhH
Q 035183 41 GIAVPVFIYKG 51 (71)
Q Consensus 41 ~v~vP~~~yy~ 51 (71)
+++.-+++++.
T Consensus 19 ~~~F~gi~~w~ 29 (49)
T PF05545_consen 19 FVFFIGIVIWA 29 (49)
T ss_pred HHHHHHHHHHH
Confidence 33333334443
No 31
>cd00925 Cyt_c_Oxidase_VIa Cytochrome c oxidase subunit VIa. 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 VIa is expressed in two tissue-specific isoforms in mammals but not fish. VIa-H is the heart and skeletal muscle isoform; VIa-L is the liver or non-muscle isoform. Mammalian VIa-H induces a slip in CcO (decrease in proton/electron stoichiometry) at high intramitochondrial ATP/ADP ratios, while VIa-L induces a permanent slip i
Probab=20.87 E-value=1.4e+02 Score=18.58 Aligned_cols=23 Identities=17% Similarity=-0.006 Sum_probs=15.3
Q ss_pred hHHHHHHHHhHHhHHhHhHhhhh
Q 035183 33 NLAIVGLFGIAVPVFIYKGIVKE 55 (71)
Q Consensus 33 t~~~~~~~~v~vP~~~yy~~~~~ 55 (71)
..|..+-|.+++|+++-..+-.-
T Consensus 14 ~~WkkiS~~va~P~v~l~~~n~y 36 (86)
T cd00925 14 ELWKKISFYVALPAVALCMLNAY 36 (86)
T ss_pred hhhhhhhhhhHHHHHHHHHHHHH
Confidence 45667777888888775554443
No 32
>cd00927 Cyt_c_Oxidase_VIc Cytochrome c oxidase subunit VIc. 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. The VIc subunit is found only in eukaryotes and its specific function remains unclear. It has been reported that the relative concentrations of some nuclear encoded CcO subunits, including subunit VIc, compared to those of the mitochondrial encoded subunits, are altered significantly during the progression of prostate cancer.
Probab=20.34 E-value=1.5e+02 Score=17.97 Aligned_cols=30 Identities=7% Similarity=0.020 Sum_probs=21.3
Q ss_pred eecchhHHHHHHHHhHHhHHhHhHhhhhhh
Q 035183 28 RWTRRNLAIVGLFGIAVPVFIYKGIVKEFH 57 (71)
Q Consensus 28 R~Tprt~~~~~~~~v~vP~~~yy~~~~~~~ 57 (71)
+-.++++..+++-.++++++++.+...-++
T Consensus 13 ~~l~~~l~~a~~lsl~~~~~~k~~~~~pRK 42 (70)
T cd00927 13 SRIKRHLIVAFVLSLGAAAAYKFLVNEPRK 42 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence 345778888888888888888765544343
No 33
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=20.06 E-value=42 Score=21.02 Aligned_cols=7 Identities=29% Similarity=0.325 Sum_probs=3.0
Q ss_pred Hhhhhhh
Q 035183 51 GIVKEFH 57 (71)
Q Consensus 51 ~~~~~~~ 57 (71)
++-.|++
T Consensus 85 VILRer~ 91 (101)
T PF06024_consen 85 VILRERQ 91 (101)
T ss_pred EEEeccc
Confidence 3444443
No 34
>PF08260 Kinin: Insect kinin peptide; InterPro: IPR013202 This entry represents neuropeptides that are the first members of the insect kinin-family isolated from the American cockroach. Their occurrence in the retrocerebral complex suggests a physiological role as a neurohormone. The C-terminal sequence Phe-X-Ser-Trp-Gly-NH2 characterised the peptides as members of the insect kinin family. Data suggest a possible involvement of insect kinins in water-balance by regulating the osmoregulation. Insect kinins also mediate visceral muscle contractile activity (myotropic activity) []. These peptides have lengths ranging from 6 to 14 amino acids [].
Probab=20.00 E-value=12 Score=14.07 Aligned_cols=7 Identities=14% Similarity=0.729 Sum_probs=4.2
Q ss_pred CHHHHHH
Q 035183 10 NRFIEEW 16 (71)
Q Consensus 10 dpalerw 16 (71)
||++..|
T Consensus 1 ~pafnsw 7 (8)
T PF08260_consen 1 DPAFNSW 7 (8)
T ss_pred Ccccccc
Confidence 5666555
Done!