Query psy4516
Match_columns 115
No_of_seqs 105 out of 144
Neff 4.9
Searched_HMMs 46136
Date Fri Aug 16 19:09:42 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4516.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4516hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07225 NDUF_B4: NADH-ubiquin 100.0 6.8E-45 1.5E-49 264.6 10.4 104 4-115 19-124 (125)
2 PLN02755 complex I subunit 99.5 3.2E-14 6.9E-19 94.8 3.2 51 42-92 5-56 (71)
3 PF13858 DUF4199: Protein of u 52.5 11 0.00025 26.9 2.1 38 68-109 28-65 (163)
4 PF06024 DUF912: Nucleopolyhed 47.3 6.6 0.00014 27.2 0.1 27 70-96 66-93 (101)
5 PF09813 Coiled-coil_56: Coile 43.4 17 0.00038 25.8 1.7 29 62-90 43-71 (100)
6 PF15086 UPF0542: Uncharacteri 37.0 39 0.00084 22.9 2.6 25 65-89 16-40 (74)
7 PF01102 Glycophorin_A: Glycop 36.0 37 0.0008 24.7 2.6 29 68-96 64-95 (122)
8 PLN02177 glycerol-3-phosphate 35.1 31 0.00066 30.3 2.4 16 63-78 238-253 (497)
9 COG4499 Predicted membrane pro 34.4 72 0.0016 28.0 4.4 31 7-37 175-208 (434)
10 PF04478 Mid2: Mid2 like cell 33.6 8.9 0.00019 29.2 -1.0 47 67-113 46-97 (154)
11 PF05545 FixQ: Cbb3-type cytoc 31.8 80 0.0017 18.8 3.2 19 79-97 20-39 (49)
12 PLN02499 glycerol-3-phosphate 31.7 38 0.00082 30.2 2.4 16 63-78 225-240 (498)
13 PF09782 NDUF_B6: NADH:ubiquin 31.6 2E+02 0.0043 21.9 6.0 24 71-94 88-111 (156)
14 PF13373 DUF2407_C: DUF2407 C- 31.5 2.1E+02 0.0046 21.0 6.0 24 69-92 90-114 (140)
15 KOG4111|consensus 31.2 41 0.00088 25.2 2.1 38 62-101 76-113 (136)
16 PF02939 UcrQ: UcrQ family; I 31.1 51 0.0011 22.3 2.4 33 69-101 39-71 (80)
17 PF05864 Chordopox_RPO7: Chord 31.0 62 0.0014 21.1 2.7 21 5-25 13-34 (63)
18 PF12823 DUF3817: Domain of un 30.9 28 0.0006 23.9 1.1 35 53-87 51-85 (92)
19 PLN02434 fatty acid hydroxylas 30.5 1.7E+02 0.0038 23.4 5.8 49 22-86 20-69 (237)
20 PHA03082 DNA-dependent RNA pol 30.0 64 0.0014 21.1 2.7 21 5-25 13-34 (63)
21 PF06596 PsbX: Photosystem II 29.8 50 0.0011 19.7 2.0 28 67-94 4-36 (39)
22 KOG1699|consensus 29.6 79 0.0017 27.6 3.9 50 47-97 362-411 (442)
23 PF11016 DUF2854: Protein of u 28.7 37 0.00081 25.7 1.6 29 62-91 5-33 (147)
24 PF04921 XAP5: XAP5, circadian 28.6 67 0.0014 26.0 3.1 24 8-31 68-91 (239)
25 PF03730 Ku_C: Ku70/Ku80 C-ter 26.2 43 0.00093 22.4 1.4 14 43-56 8-21 (96)
26 PF10716 NdhL: NADH dehydrogen 25.9 76 0.0017 21.8 2.6 29 72-100 23-54 (81)
27 COG4224 Uncharacterized protei 22.0 1.2E+02 0.0026 20.7 2.9 13 21-33 30-42 (77)
28 PF15088 NADH_dh_m_C1: NADH de 21.5 67 0.0014 20.1 1.5 35 69-103 11-47 (49)
29 PF11241 DUF3043: Protein of u 21.4 3.5E+02 0.0077 20.8 5.8 56 7-67 22-84 (170)
30 PF02009 Rifin_STEVOR: Rifin/s 21.2 97 0.0021 25.7 2.8 31 69-99 259-290 (299)
31 KOG2894|consensus 20.6 1.3E+02 0.0028 25.4 3.4 24 8-31 156-179 (331)
32 PRK13214 photosystem I reactio 20.4 1.4E+02 0.0029 20.8 3.0 31 62-92 12-42 (86)
33 TIGR00739 yajC preprotein tran 20.2 1E+02 0.0023 20.6 2.4 18 72-89 3-20 (84)
No 1
>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=100.00 E-value=6.8e-45 Score=264.61 Aligned_cols=104 Identities=39% Similarity=0.689 Sum_probs=98.1
Q ss_pred CCCChHHHHH-HHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCHHHHHHHHhhc-cccccceecCchhhHHHHHHHHH
Q psy4516 4 CDPSNMRELF-EKKTKMRMALREEFIKQVYNPHRHATGEGGVLFDPAMQRYMTMST-NRYRYFKPTPKTSWLGLGLILGP 81 (115)
Q Consensus 4 ~~~~~e~~~~-~~r~~~R~~Lk~eYlkq~~nP~r~~~~e~~l~~DPAL~Rw~~mr~-n~y~~FR~Tprta~~~~~~~vvP 81 (115)
-|+|||++.| +||+|+|++||+|||||+||||+. |+++||||+||++|+. |+|+||||||||++++++++++|
T Consensus 19 Y~~SpE~r~a~~eR~a~Ra~Lk~eYlkq~~nP~~~-----gli~DPAL~Rw~~a~~~~~y~~FRpTPktsllg~~~~v~P 93 (125)
T PF07225_consen 19 YDVSPEERRAQQERAAIRARLKREYLKQYNNPHRK-----GLIFDPALQRWAYARAVNIYEYFRPTPKTSLLGLGFGVVP 93 (125)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCC-----CccCChHHHHHHHHHHhCcccccccCchHHHHHHHHHHHH
Confidence 4889888776 999999999999999999999977 8999999999966665 99999999999999999999999
Q ss_pred HHHHHHHHhcccchhhhhhhhCcccccccccccC
Q psy4516 82 IVATMLYIQKTKDDDEHQLRTGQVAYRDRWNKFL 115 (115)
Q Consensus 82 ~~~~~~v~kt~rd~~e~~~r~G~i~y~dR~fk~~ 115 (115)
++++++++|+|||++|++||+||| ||.||++
T Consensus 94 ~i~~~~~~KtdRD~~E~~~r~G~~---dR~f~~~ 124 (125)
T PF07225_consen 94 LIFYYYVLKTDRDRKEKLIRTGKL---DRPFKLS 124 (125)
T ss_pred HHHHHhhhccchhHHHHHHhcCcc---ceeeccC
Confidence 999999999999999999999999 9999974
No 2
>PLN02755 complex I subunit
Probab=99.47 E-value=3.2e-14 Score=94.83 Aligned_cols=51 Identities=12% Similarity=-0.087 Sum_probs=46.4
Q ss_pred CCCCCCHHHHHHHHhhccccccceecCchhhHHHHHH-HHHHHHHHHHHhcc
Q psy4516 42 GGVLFDPAMQRYMTMSTNRYRYFKPTPKTSWLGLGLI-LGPIVATMLYIQKT 92 (115)
Q Consensus 42 ~~l~~DPAL~Rw~~mr~n~y~~FR~Tprta~~~~~~~-vvP~~~~~~v~kt~ 92 (115)
-++..+.-|+.|++||+|+|+||||||||++++++|+ +||+++++.+++.-
T Consensus 5 ~~~~~Nk~iE~~~~~reNrekyFRWT~Rt~~i~~ifgv~VP~liy~giv~eF 56 (71)
T PLN02755 5 MEVNKNKFIEEWGAARENLEFNFRWTRRNLAVVGIFGIAVPILVYKGIVREF 56 (71)
T ss_pred cccCccHHHHHHHHHHHHHHHheecccchhhhhhhhhhhhhHHhhhhhhhhh
Confidence 3678899999999999999999999999999999999 69998888888654
No 3
>PF13858 DUF4199: Protein of unknown function (DUF4199)
Probab=52.47 E-value=11 Score=26.89 Aligned_cols=38 Identities=21% Similarity=0.515 Sum_probs=26.3
Q ss_pred CchhhHHHHHHHHHHHHHHHHHhcccchhhhhhhhCcccccc
Q psy4516 68 PKTSWLGLGLILGPIVATMLYIQKTKDDDEHQLRTGQVAYRD 109 (115)
Q Consensus 68 prta~~~~~~~vvP~~~~~~v~kt~rd~~e~~~r~G~i~y~d 109 (115)
|-+.+++.+.+++++++.++.++.-|| ...+|.++|++
T Consensus 28 ~~~~~~~~~~~~~~~~~i~~~i~~~R~----~~~~g~isf~~ 65 (163)
T PF13858_consen 28 PSNSWLGILSMVITIIFIYFAIRRYRK----KYNGGFISFGQ 65 (163)
T ss_pred cHhHHHHHHHHHHHHHHHHHHHHHHHH----HccCCCeeHHH
Confidence 445666777777777777888888776 35667776654
No 4
>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=47.29 E-value=6.6 Score=27.25 Aligned_cols=27 Identities=15% Similarity=0.107 Sum_probs=15.4
Q ss_pred hhhHHHHHH-HHHHHHHHHHHhcccchh
Q psy4516 70 TSWLGLGLI-LGPIVATMLYIQKTKDDD 96 (115)
Q Consensus 70 ta~~~~~~~-vvP~~~~~~v~kt~rd~~ 96 (115)
.++++++++ |+-.+++++++-++|.+.
T Consensus 66 i~lls~v~IlVily~IyYFVILRer~~~ 93 (101)
T PF06024_consen 66 ISLLSFVCILVILYAIYYFVILRERQKS 93 (101)
T ss_pred HHHHHHHHHHHHHhhheEEEEEeccccc
Confidence 345555555 344456666777777643
No 5
>PF09813 Coiled-coil_56: Coiled-coil domain-containing protein 56; InterPro: IPR018628 Members of this family of proteins have no known function.
Probab=43.35 E-value=17 Score=25.85 Aligned_cols=29 Identities=14% Similarity=-0.008 Sum_probs=23.5
Q ss_pred ccceecCchhhHHHHHHHHHHHHHHHHHh
Q psy4516 62 RYFKPTPKTSWLGLGLILGPIVATMLYIQ 90 (115)
Q Consensus 62 ~~FR~Tprta~~~~~~~vvP~~~~~~v~k 90 (115)
.-++...||.++|++.+++.+++|+|.+.
T Consensus 43 ~~~~~R~rN~~Tgl~L~~~v~gIY~YTi~ 71 (100)
T PF09813_consen 43 KLQRRRRRNLLTGLALGAFVVGIYAYTIY 71 (100)
T ss_pred HHHHHhhhhHHHHHHHHHHHHHHHhheee
Confidence 45666789999999999777799999773
No 6
>PF15086 UPF0542: Uncharacterised protein family UPF0542
Probab=36.98 E-value=39 Score=22.86 Aligned_cols=25 Identities=20% Similarity=0.202 Sum_probs=19.2
Q ss_pred eecCchhhHHHHHHHHHHHHHHHHH
Q psy4516 65 KPTPKTSWLGLGLILGPIVATMLYI 89 (115)
Q Consensus 65 R~Tprta~~~~~~~vvP~~~~~~v~ 89 (115)
.=.|-..+.++++++.|+++...++
T Consensus 16 AkdP~~Fl~~vll~LtPlfiisa~l 40 (74)
T PF15086_consen 16 AKDPYEFLTTVLLILTPLFIISAVL 40 (74)
T ss_pred HcChHHHHHHHHHHHhHHHHHHHHH
Confidence 3467778889999999988776654
No 7
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=36.00 E-value=37 Score=24.70 Aligned_cols=29 Identities=17% Similarity=0.369 Sum_probs=13.3
Q ss_pred CchhhHHHHHH---HHHHHHHHHHHhcccchh
Q psy4516 68 PKTSWLGLGLI---LGPIVATMLYIQKTKDDD 96 (115)
Q Consensus 68 prta~~~~~~~---vvP~~~~~~v~kt~rd~~ 96 (115)
|-.++|.++.| ++-+++++|++.+.|.+.
T Consensus 64 ~~i~~Ii~gv~aGvIg~Illi~y~irR~~Kk~ 95 (122)
T PF01102_consen 64 PAIIGIIFGVMAGVIGIILLISYCIRRLRKKS 95 (122)
T ss_dssp TCHHHHHHHHHHHHHHHHHHHHHHHHHHS---
T ss_pred cceeehhHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 34445544444 244455566666665543
No 8
>PLN02177 glycerol-3-phosphate acyltransferase
Probab=35.10 E-value=31 Score=30.32 Aligned_cols=16 Identities=25% Similarity=0.362 Sum_probs=14.5
Q ss_pred cceecCchhhHHHHHH
Q psy4516 63 YFKPTPKTSWLGLGLI 78 (115)
Q Consensus 63 ~FR~Tprta~~~~~~~ 78 (115)
-|||||-+++..++|+
T Consensus 238 ~~~p~~~~~l~~~~~~ 253 (497)
T PLN02177 238 VQRPTPLVALLTFLWM 253 (497)
T ss_pred cCCCCHHHHHHHHHHH
Confidence 4899999999999887
No 9
>COG4499 Predicted membrane protein [Function unknown]
Probab=34.36 E-value=72 Score=27.99 Aligned_cols=31 Identities=13% Similarity=0.229 Sum_probs=19.9
Q ss_pred ChHHHHH---HHHHHHHHHHHHHHHHHhcCCCCC
Q psy4516 7 SNMRELF---EKKTKMRMALREEFIKQVYNPHRH 37 (115)
Q Consensus 7 ~~e~~~~---~~r~~~R~~Lk~eYlkq~~nP~r~ 37 (115)
|++.+.+ +-=.-+++-+..+|+++...=-++
T Consensus 175 t~f~ksil~a~Tld~l~e~i~e~~~kE~e~~~kn 208 (434)
T COG4499 175 TPFEKSILDAETLDDLAEFIDEEYQKETEKINKN 208 (434)
T ss_pred CHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhcc
Confidence 3444444 334457777888899987766664
No 10
>PF04478 Mid2: Mid2 like cell wall stress sensor; InterPro: IPR007567 This family represents a region near the C terminus of Mid2, which contains a transmembrane region. The remainder of the protein sequence is serine-rich and of low complexity, and is therefore impossible to align accurately. Mid2 is thought to act as a mechanosensor of cell wall stress. The C-terminal cytoplasmic region of Mid2 is known to interact with Rom2, a guanine nucleotide exchange factor (GEF) for Rho1, which is part of the cell wall integrity signalling pathway [].
Probab=33.64 E-value=8.9 Score=29.19 Aligned_cols=47 Identities=23% Similarity=0.287 Sum_probs=25.7
Q ss_pred cCchhhHHHHHHH-HHHHHHHH----HHhcccchhhhhhhhCcccccccccc
Q psy4516 67 TPKTSWLGLGLIL-GPIVATML----YIQKTKDDDEHQLRTGQVAYRDRWNK 113 (115)
Q Consensus 67 Tprta~~~~~~~v-vP~~~~~~----v~kt~rd~~e~~~r~G~i~y~dR~fk 113 (115)
+-|+..+|++.|| +|+++.+. .++..+.+..--=-+|++.++-+.-+
T Consensus 46 knknIVIGvVVGVGg~ill~il~lvf~~c~r~kktdfidSdGkvvtay~~n~ 97 (154)
T PF04478_consen 46 KNKNIVIGVVVGVGGPILLGILALVFIFCIRRKKTDFIDSDGKVVTAYRSNK 97 (154)
T ss_pred CCccEEEEEEecccHHHHHHHHHhheeEEEecccCccccCCCcEEEEEcCch
Confidence 3456778888874 66544322 22444444433445788866655433
No 11
>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=31.84 E-value=80 Score=18.75 Aligned_cols=19 Identities=16% Similarity=-0.088 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHhcc-cchhh
Q psy4516 79 LGPIVATMLYIQKT-KDDDE 97 (115)
Q Consensus 79 vvP~~~~~~v~kt~-rd~~e 97 (115)
++=+++++|+.... +++.|
T Consensus 20 ~~F~gi~~w~~~~~~k~~~e 39 (49)
T PF05545_consen 20 VFFIGIVIWAYRPRNKKRFE 39 (49)
T ss_pred HHHHHHHHHHHcccchhhHH
Confidence 33335666666433 44444
No 12
>PLN02499 glycerol-3-phosphate acyltransferase
Probab=31.67 E-value=38 Score=30.16 Aligned_cols=16 Identities=44% Similarity=0.436 Sum_probs=14.4
Q ss_pred cceecCchhhHHHHHH
Q psy4516 63 YFKPTPKTSWLGLGLI 78 (115)
Q Consensus 63 ~FR~Tprta~~~~~~~ 78 (115)
-|||||-+++..++|+
T Consensus 225 ~~~ptp~~~l~~~~w~ 240 (498)
T PLN02499 225 VKRPTPATALLILLWI 240 (498)
T ss_pred cCCCCHHHHHHHHHHH
Confidence 4999999999999887
No 13
>PF09782 NDUF_B6: NADH:ubiquinone oxidoreductase, NDUFB6/B17 subunit; InterPro: IPR019174 The NADH dehydrogenase [ubiquinone] complex performs the first stage of electron transfer from NADH to the respiratory chain. This entry represents an accessory subunit that is not thought to be involved in catalysis [].
Probab=31.63 E-value=2e+02 Score=21.85 Aligned_cols=24 Identities=13% Similarity=0.231 Sum_probs=14.6
Q ss_pred hhHHHHHHHHHHHHHHHHHhcccc
Q psy4516 71 SWLGLGLILGPIVATMLYIQKTKD 94 (115)
Q Consensus 71 a~~~~~~~vvP~~~~~~v~kt~rd 94 (115)
+...++++++|+-+..|.+|=.-.
T Consensus 88 ~i~k~~~~li~~w~~~Yy~KYn~~ 111 (156)
T PF09782_consen 88 GIFKFTMVLIPAWIIHYYFKYNVN 111 (156)
T ss_pred hHHHHHHHHHHHHHHHHHHhhccc
Confidence 344455557787777777764433
No 14
>PF13373 DUF2407_C: DUF2407 C-terminal domain
Probab=31.46 E-value=2.1e+02 Score=21.04 Aligned_cols=24 Identities=8% Similarity=0.083 Sum_probs=18.1
Q ss_pred chhhHHHHHH-HHHHHHHHHHHhcc
Q psy4516 69 KTSWLGLGLI-LGPIVATMLYIQKT 92 (115)
Q Consensus 69 rta~~~~~~~-vvP~~~~~~v~kt~ 92 (115)
...+.|++++ +.|++.+.++++.+
T Consensus 90 ~dlL~G~liGff~g~~~~~~L~~~~ 114 (140)
T PF13373_consen 90 DDLLWGLLIGFFFGLFSLFWLLRED 114 (140)
T ss_pred HHHHHHHHHHHHHHHHhHHHHhhcc
Confidence 4567788888 68888888887765
No 15
>KOG4111|consensus
Probab=31.19 E-value=41 Score=25.20 Aligned_cols=38 Identities=11% Similarity=0.307 Sum_probs=26.2
Q ss_pred ccceecCchhhHHHHHHHHHHHHHHHHHhcccchhhhhhh
Q psy4516 62 RYFKPTPKTSWLGLGLILGPIVATMLYIQKTKDDDEHQLR 101 (115)
Q Consensus 62 ~~FR~Tprta~~~~~~~vvP~~~~~~v~kt~rd~~e~~~r 101 (115)
+.|++|.+.+|++.-..++ ++.-+++-++|...++.+.
T Consensus 76 k~~~fsg~a~Wi~tTt~lI--L~vP~i~e~E~~q~~~e~e 113 (136)
T KOG4111|consen 76 KLYSFSGKAAWIATTTFLI--LVVPLIFETEREQQLQEQE 113 (136)
T ss_pred HHHHhccchhHHHHHHHHH--HHHHHHHHHHHHHHHhHHH
Confidence 4678899999987766633 2344677888877776554
No 16
>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=31.10 E-value=51 Score=22.25 Aligned_cols=33 Identities=12% Similarity=0.141 Sum_probs=21.3
Q ss_pred chhhHHHHHHHHHHHHHHHHHhcccchhhhhhh
Q psy4516 69 KTSWLGLGLILGPIVATMLYIQKTKDDDEHQLR 101 (115)
Q Consensus 69 rta~~~~~~~vvP~~~~~~v~kt~rd~~e~~~r 101 (115)
|.+.-.+++++.|+++.+++..--.++.|.+.+
T Consensus 39 RR~~~q~~~v~ppfi~~y~i~~Wa~~~~~~~~r 71 (80)
T PF02939_consen 39 RRFRSQVLYVAPPFIVGYLIYDWANEENEYLNR 71 (80)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTS
T ss_pred HHHHHHhHHHhhHHHHHHHHHHHHHHHHHHHcC
Confidence 445566777788877777777655555555544
No 17
>PF05864 Chordopox_RPO7: Chordopoxvirus DNA-directed RNA polymerase 7 kDa polypeptide (RPO7); InterPro: IPR008448 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several Chordopoxvirus DNA-directed RNA polymerase 7 kDa polypeptide sequences. DNA-dependent RNA polymerase catalyses the transcription of DNA into RNA [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=30.99 E-value=62 Score=21.14 Aligned_cols=21 Identities=33% Similarity=0.455 Sum_probs=15.4
Q ss_pred CCChHH-HHHHHHHHHHHHHHH
Q psy4516 5 DPSNMR-ELFEKKTKMRMALRE 25 (115)
Q Consensus 5 ~~~~e~-~~~~~r~~~R~~Lk~ 25 (115)
|+|+|| +.+.++..+.+-|+.
T Consensus 13 DlSeeRy~Lli~~~~Lk~Vl~~ 34 (63)
T PF05864_consen 13 DLSEERYRLLIKEMSLKKVLRT 34 (63)
T ss_pred cchHHHHHHHHHHhhHHHHHHH
Confidence 899999 455777777776653
No 18
>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=30.86 E-value=28 Score=23.87 Aligned_cols=35 Identities=14% Similarity=0.136 Sum_probs=25.2
Q ss_pred HHHhhccccccceecCchhhHHHHHHHHHHHHHHH
Q psy4516 53 YMTMSTNRYRYFKPTPKTSWLGLGLILGPIVATML 87 (115)
Q Consensus 53 w~~mr~n~y~~FR~Tprta~~~~~~~vvP~~~~~~ 87 (115)
|.-+=......-||+++...++++..++|++.+..
T Consensus 51 Yl~~~~~~~~~~rW~~~~~~~~llas~iPfg~f~~ 85 (92)
T PF12823_consen 51 YLVAALDLASKYRWSLKRTLLALLASVIPFGTFWF 85 (92)
T ss_pred HHHHHHHHHHHcCCChHHHHHHHHHHcccccHHHH
Confidence 33333444556689999999999999999665544
No 19
>PLN02434 fatty acid hydroxylase
Probab=30.55 E-value=1.7e+02 Score=23.43 Aligned_cols=49 Identities=27% Similarity=0.436 Sum_probs=29.7
Q ss_pred HHHHHHHHHhcCCCCCCCCCCCCCCC-HHHHHHHHhhccccccceecCchhhHHHHHHHHHHHHHH
Q psy4516 22 ALREEFIKQVYNPHRHATGEGGVLFD-PAMQRYMTMSTNRYRYFKPTPKTSWLGLGLILGPIVATM 86 (115)
Q Consensus 22 ~Lk~eYlkq~~nP~r~~~~e~~l~~D-PAL~Rw~~mr~n~y~~FR~Tprta~~~~~~~vvP~~~~~ 86 (115)
.++..|+.|..+|-.. +++.=.++ +-|+.. -||.+-.+..+-+|++++.
T Consensus 20 ~~~~~Y~~~vh~p~~~--~~~~rlF~~~~lE~l--------------srt~w~vvp~iw~pvv~~~ 69 (237)
T PLN02434 20 HLGEDYEEWVHQPIVS--KEGPRFFESDVLEFL--------------TRTVWWAVPLIWLPVVCWC 69 (237)
T ss_pred HHhHHHHHHhcCCccC--CCCCCCCCcHHHHHh--------------cCCchhhhHHHHHHHHHHH
Confidence 6899999999999755 34445566 444432 2455555555545544333
No 20
>PHA03082 DNA-dependent RNA polymerase subunit; Provisional
Probab=30.01 E-value=64 Score=21.07 Aligned_cols=21 Identities=38% Similarity=0.498 Sum_probs=15.8
Q ss_pred CCChHH-HHHHHHHHHHHHHHH
Q psy4516 5 DPSNMR-ELFEKKTKMRMALRE 25 (115)
Q Consensus 5 ~~~~e~-~~~~~r~~~R~~Lk~ 25 (115)
|+|||| +.+.++..+++-|+.
T Consensus 13 DlSeeRy~Lli~~~~L~~Vl~~ 34 (63)
T PHA03082 13 DLSEERYRLLIKKKSLKKVLRT 34 (63)
T ss_pred chhHHHHHHHHHHhhHHHHHHH
Confidence 899999 455778877777654
No 21
>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=29.79 E-value=50 Score=19.72 Aligned_cols=28 Identities=18% Similarity=0.167 Sum_probs=12.4
Q ss_pred cCchhhHHHHHH----HHHHHHHHHH-Hhcccc
Q psy4516 67 TPKTSWLGLGLI----LGPIVATMLY-IQKTKD 94 (115)
Q Consensus 67 Tprta~~~~~~~----vvP~~~~~~v-~kt~rd 94 (115)
+-.+.+.+++.+ ++|+.+.... -++|+-
T Consensus 4 SL~nfl~Sl~aG~~iVv~~i~~ali~VSq~D~v 36 (39)
T PF06596_consen 4 SLSNFLLSLVAGAVIVVIPIAGALIFVSQFDRV 36 (39)
T ss_dssp HHHHHHHHHHHHH-HHHHHHHHHHHHHHCCS--
T ss_pred hHHHHHHHHHhhhhhhhhhhhhheEEEeccCcc
Confidence 334555555554 3564333332 366654
No 22
>KOG1699|consensus
Probab=29.64 E-value=79 Score=27.63 Aligned_cols=50 Identities=12% Similarity=0.070 Sum_probs=36.0
Q ss_pred CHHHHHHHHhhccccccceecCchhhHHHHHHHHHHHHHHHHHhcccchhh
Q psy4516 47 DPAMQRYMTMSTNRYRYFKPTPKTSWLGLGLILGPIVATMLYIQKTKDDDE 97 (115)
Q Consensus 47 DPAL~Rw~~mr~n~y~~FR~Tprta~~~~~~~vvP~~~~~~v~kt~rd~~e 97 (115)
-|++|||+.--++-...++-+.+++.+++...+. .+.+-.+.+.++..-+
T Consensus 362 ~~~vek~~~~~e~~~~~~~~~~~s~~v~i~s~vg-~~~y~~~~~~n~~~~n 411 (442)
T KOG1699|consen 362 HPTVEKWMEKLEECEGKLFSSIKSSIVTILSLVG-YGWYWSIYCMNKQNCN 411 (442)
T ss_pred HHHHHHHHHHhhcCCcchhhhhHHHHHHHHHHHH-HHHHHHHHHhhHHhhh
Confidence 4899999999999999999888888777666554 2444344476665433
No 23
>PF11016 DUF2854: Protein of unknown function (DUF2854); InterPro: IPR021275 This family of proteins has no known function.
Probab=28.68 E-value=37 Score=25.69 Aligned_cols=29 Identities=24% Similarity=0.221 Sum_probs=18.1
Q ss_pred ccceecCchhhHHHHHHHHHHHHHHHHHhc
Q psy4516 62 RYFKPTPKTSWLGLGLILGPIVATMLYIQK 91 (115)
Q Consensus 62 ~~FR~Tprta~~~~~~~vvP~~~~~~v~kt 91 (115)
-||-+.+--++.+|+|| +|+++.+.++|.
T Consensus 5 aY~~~~a~lsl~~ffYG-iPilLgGlALK~ 33 (147)
T PF11016_consen 5 AYFTDNANLSLPGFFYG-IPILLGGLALKY 33 (147)
T ss_pred EEecCCCceeeehHHhh-hHHHHHHHHHHH
Confidence 35555555555555554 677888888764
No 24
>PF04921 XAP5: XAP5, circadian clock regulator; InterPro: IPR007005 These proteins are found in a wide range of eukaryotes. Their function is uncertain though they are nuclear proteins, possibly with DNA-binding activity.; GO: 0005634 nucleus
Probab=28.58 E-value=67 Score=26.00 Aligned_cols=24 Identities=25% Similarity=0.343 Sum_probs=16.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHh
Q psy4516 8 NMRELFEKKTKMRMALREEFIKQV 31 (115)
Q Consensus 8 ~e~~~~~~r~~~R~~Lk~eYlkq~ 31 (115)
|-+++.++=++.|.+||+||+.+-
T Consensus 68 pDk~Re~~E~~~Re~LRkE~~~~Q 91 (239)
T PF04921_consen 68 PDKEREEEEAQEREELRKEWLAKQ 91 (239)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444557889999999864
No 25
>PF03730 Ku_C: Ku70/Ku80 C-terminal arm; InterPro: IPR005160 The Ku heterodimer (composed of Ku70 P12956 from SWISSPROT and Ku80 P13010 from SWISSPROT) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the C-terminal arm. This alpha helical region embraces the beta-barrel domain IPR006164 from INTERPRO of the opposite subunit [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0006303 double-strand break repair via nonhomologous end joining; PDB: 1JEY_B 1JEQ_B 1RW2_A 3RZ9_B 3RZX_B.
Probab=26.22 E-value=43 Score=22.40 Aligned_cols=14 Identities=21% Similarity=0.346 Sum_probs=9.3
Q ss_pred CCCCCHHHHHHHHh
Q psy4516 43 GVLFDPAMQRYMTM 56 (115)
Q Consensus 43 ~l~~DPAL~Rw~~m 56 (115)
....||+||+.+..
T Consensus 8 ~~~~NP~LQ~hY~~ 21 (96)
T PF03730_consen 8 DKFPNPSLQRHYKC 21 (96)
T ss_dssp CCS--HHHHHHHHH
T ss_pred CCcCCchHHHHHHH
Confidence 57899999997643
No 26
>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=25.90 E-value=76 Score=21.79 Aligned_cols=29 Identities=10% Similarity=0.012 Sum_probs=17.3
Q ss_pred hHHHHHH-HHHHHHHHHHHh--cccchhhhhh
Q psy4516 72 WLGLGLI-LGPIVATMLYIQ--KTKDDDEHQL 100 (115)
Q Consensus 72 ~~~~~~~-vvP~~~~~~v~k--t~rd~~e~~~ 100 (115)
.+++++. |+|.+++.|+=+ ..+.+.|..+
T Consensus 23 ~l~~~YLlVvP~~l~~wm~~RWy~~~~~Er~~ 54 (81)
T PF10716_consen 23 ALAGLYLLVVPLILYFWMNKRWYVMSSFERLF 54 (81)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666 799888777653 2344445443
No 27
>COG4224 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.01 E-value=1.2e+02 Score=20.66 Aligned_cols=13 Identities=23% Similarity=0.503 Sum_probs=8.4
Q ss_pred HHHHHHHHHHhcC
Q psy4516 21 MALREEFIKQVYN 33 (115)
Q Consensus 21 ~~Lk~eYlkq~~n 33 (115)
+.||++|+.+.--
T Consensus 30 ~~LR~eYl~~fr~ 42 (77)
T COG4224 30 AKLRREYLESFRG 42 (77)
T ss_pred HHHHHHHHHHHHH
Confidence 3477788776543
No 28
>PF15088 NADH_dh_m_C1: NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial
Probab=21.53 E-value=67 Score=20.06 Aligned_cols=35 Identities=29% Similarity=0.451 Sum_probs=20.6
Q ss_pred chhhHHHHHH-HHHHHHHHHHHhcc-cchhhhhhhhC
Q psy4516 69 KTSWLGLGLI-LGPIVATMLYIQKT-KDDDEHQLRTG 103 (115)
Q Consensus 69 rta~~~~~~~-vvP~~~~~~v~kt~-rd~~e~~~r~G 103 (115)
+.-|+-++.. ...+++|+|++|+. .|--|-+.|+|
T Consensus 11 kPnWlkVGLtlGts~flW~~L~kqHneDVlEYkrRNg 47 (49)
T PF15088_consen 11 KPNWLKVGLTLGTSVFLWIYLIKQHNEDVLEYKRRNG 47 (49)
T ss_pred CCChhheeeecchHHHHHHHHHHhhchHHHHHHHhcC
Confidence 3444444444 34568999999765 44445555555
No 29
>PF11241 DUF3043: Protein of unknown function (DUF3043); InterPro: IPR021403 Some members in this family of proteins with unknown function are annotated as membrane proteins. This cannot be confirmed.
Probab=21.39 E-value=3.5e+02 Score=20.75 Aligned_cols=56 Identities=16% Similarity=0.205 Sum_probs=31.0
Q ss_pred ChHHHHH--HHHHHHHHHHHHHHHHHhcC-----CCCCCCCCCCCCCCHHHHHHHHhhccccccceec
Q psy4516 7 SNMRELF--EKKTKMRMALREEFIKQVYN-----PHRHATGEGGVLFDPAMQRYMTMSTNRYRYFKPT 67 (115)
Q Consensus 7 ~~e~~~~--~~r~~~R~~Lk~eYlkq~~n-----P~r~~~~e~~l~~DPAL~Rw~~mr~n~y~~FR~T 67 (115)
+++++.+ +.|++.|++-.+++....+- |-+.. || .=--+-.|.-+|-|..++|=|-
T Consensus 22 p~drKeak~~~R~~~r~~r~~~r~aM~~GDeryLp~RDr-GP----~Rr~vRD~VDsR~~i~e~fmP~ 84 (170)
T PF11241_consen 22 PEDRKEAKKRAREARRERRARQREAMMTGDERYLPPRDR-GP----VRRYVRDYVDSRRNIGEFFMPV 84 (170)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHcChhhcCCcccc-cc----hhhhhhhhhhcccchHHHHHHH
Confidence 3455544 66666666666666544332 55543 22 1123445778888888887553
No 30
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=21.24 E-value=97 Score=25.69 Aligned_cols=31 Identities=13% Similarity=0.172 Sum_probs=17.2
Q ss_pred chhhHHHHHHHHHHHHHHHHHhccc-chhhhh
Q psy4516 69 KTSWLGLGLILGPIVATMLYIQKTK-DDDEHQ 99 (115)
Q Consensus 69 rta~~~~~~~vvP~~~~~~v~kt~r-d~~e~~ 99 (115)
--+.++++.+|+-|++.|+++.-+| .+..++
T Consensus 259 ~aSiiaIliIVLIMvIIYLILRYRRKKKmkKK 290 (299)
T PF02009_consen 259 IASIIAILIIVLIMVIIYLILRYRRKKKMKKK 290 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Confidence 4444445555666777777775444 444443
No 31
>KOG2894|consensus
Probab=20.56 E-value=1.3e+02 Score=25.44 Aligned_cols=24 Identities=29% Similarity=0.383 Sum_probs=17.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHh
Q psy4516 8 NMRELFEKKTKMRMALREEFIKQV 31 (115)
Q Consensus 8 ~e~~~~~~r~~~R~~Lk~eYlkq~ 31 (115)
|.++..++=.++|.+|++|++.+-
T Consensus 156 PDrEREeeEnr~RE~L~~eW~~~q 179 (331)
T KOG2894|consen 156 PDREREEEENRLREELRQEWEAKQ 179 (331)
T ss_pred CchhhHHHHHHHHHHHHHHHHHHH
Confidence 556666555668999999998764
No 32
>PRK13214 photosystem I reaction center subunit X; Reviewed
Probab=20.36 E-value=1.4e+02 Score=20.76 Aligned_cols=31 Identities=13% Similarity=-0.008 Sum_probs=24.3
Q ss_pred ccceecCchhhHHHHHHHHHHHHHHHHHhcc
Q psy4516 62 RYFKPTPKTSWLGLGLILGPIVATMLYIQKT 92 (115)
Q Consensus 62 ~~FR~Tprta~~~~~~~vvP~~~~~~v~kt~ 92 (115)
..+-|||+.+.+-.+.-++-+++..+.+|..
T Consensus 12 ~t~~Wsp~vaiIMI~cNilai~igk~~I~~p 42 (86)
T PRK13214 12 ATLEWSPKVALVMIICNIIAIAFGKATIKYP 42 (86)
T ss_pred CCCCcCchhHHHHHHHHHHHHHHHHHHhcCC
Confidence 6788999998887777677777888888653
No 33
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=20.23 E-value=1e+02 Score=20.62 Aligned_cols=18 Identities=11% Similarity=-0.046 Sum_probs=8.1
Q ss_pred hHHHHHHHHHHHHHHHHH
Q psy4516 72 WLGLGLILGPIVATMLYI 89 (115)
Q Consensus 72 ~~~~~~~vvP~~~~~~v~ 89 (115)
+.+++++++-++++++++
T Consensus 3 ~~~l~~~vv~~~i~yf~~ 20 (84)
T TIGR00739 3 LTTLLPLVLIFLIFYFLI 20 (84)
T ss_pred HHHHHHHHHHHHHHHHhe
Confidence 344555444334444444
Done!