Query 026211
Match_columns 241
No_of_seqs 28 out of 30
Neff 2.6
Searched_HMMs 46136
Date Fri Mar 29 05:05:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026211.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026211hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR03042 PS_II_psbQ_bact phot 91.8 6.8 0.00015 33.4 12.8 91 136-231 44-140 (142)
2 PLN00054 photosystem I reactio 74.0 4.2 9E-05 34.9 3.6 45 68-124 30-78 (139)
3 PF05757 PsbQ: Oxygen evolving 56.7 85 0.0018 28.1 8.5 92 136-230 104-199 (202)
4 PF14276 DUF4363: Domain of un 55.8 28 0.00061 27.1 4.8 71 138-214 26-96 (121)
5 PHA03171 UL37 tegument protein 52.9 12 0.00027 37.4 2.9 43 113-155 46-90 (499)
6 PF08777 RRM_3: RNA binding mo 52.0 9.4 0.0002 30.1 1.6 31 94-124 70-100 (105)
7 PLN02999 photosystem II oxygen 51.8 1.9E+02 0.0041 26.3 12.2 163 30-228 4-185 (190)
8 PF08781 DP: Transcription fac 51.4 23 0.0005 30.3 4.0 27 106-141 2-28 (142)
9 KOG2391 Vacuolar sorting prote 50.8 1.5E+02 0.0032 29.3 9.6 77 99-180 205-284 (365)
10 PF07499 RuvA_C: RuvA, C-termi 44.5 58 0.0013 22.1 4.4 19 170-188 1-19 (47)
11 cd07625 BAR_Vps17p The Bin/Amp 42.3 2.3E+02 0.0049 25.7 9.0 114 101-233 12-136 (230)
12 cd02988 Phd_like_VIAF Phosduci 40.1 29 0.00062 29.8 2.9 25 99-123 50-74 (192)
13 PF08372 PRT_C: Plant phosphor 36.6 56 0.0012 28.1 4.1 44 101-153 37-87 (156)
14 PRK10378 inactive ferrous ion 35.6 74 0.0016 30.9 5.1 45 189-233 144-188 (375)
15 PF02114 Phosducin: Phosducin; 35.3 38 0.00083 30.8 3.1 21 103-123 96-116 (265)
16 PF14577 SEO_C: Sieve element 33.9 54 0.0012 30.2 3.8 45 163-207 38-116 (235)
17 COG4736 CcoQ Cbb3-type cytochr 33.5 35 0.00075 25.5 2.1 36 71-108 18-53 (60)
18 KOG4133 tRNA splicing endonucl 33.2 67 0.0014 30.6 4.3 65 107-174 87-157 (290)
19 PF07304 SRA1: Steroid recepto 31.9 1.1E+02 0.0023 25.9 5.0 26 138-163 88-113 (157)
20 KOG4031 Vesicle coat protein c 31.5 78 0.0017 29.1 4.3 33 94-126 89-124 (216)
21 cd02987 Phd_like_Phd Phosducin 31.1 46 0.001 28.0 2.7 18 107-124 37-54 (175)
22 COG4829 CatC1 Muconolactone de 30.7 58 0.0012 26.7 3.1 30 100-129 10-42 (98)
23 PLN00078 photosystem I reactio 28.3 56 0.0012 27.6 2.7 45 65-122 33-77 (122)
24 KOG2829 E2F-like protein [Tran 27.0 91 0.002 30.2 4.2 58 90-154 115-172 (326)
25 PF07293 DUF1450: Protein of u 25.0 48 0.001 25.7 1.6 17 99-115 54-70 (78)
26 PF03232 COQ7: Ubiquinone bios 24.6 1.6E+02 0.0034 25.5 4.9 47 104-150 117-163 (172)
27 PRK04654 sec-independent trans 23.5 69 0.0015 29.3 2.6 46 154-204 23-68 (214)
28 PF08912 Rho_Binding: Rho Bind 23.4 2.2E+02 0.0048 22.0 4.9 17 131-147 48-64 (69)
29 PF10075 PCI_Csn8: COP9 signal 22.9 3.8E+02 0.0083 21.3 6.5 80 141-233 41-122 (143)
30 PF02426 MIase: Muconolactone 22.9 88 0.0019 24.8 2.8 30 101-130 11-43 (91)
31 PF02413 Caudo_TAP: Caudoviral 21.1 1.6E+02 0.0034 23.6 4.0 30 106-141 60-89 (130)
32 TIGR02863 spore_sspJ small, ac 20.5 81 0.0018 22.9 1.9 20 124-143 21-42 (47)
No 1
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=91.80 E-value=6.8 Score=33.38 Aligned_cols=91 Identities=15% Similarity=0.279 Sum_probs=68.1
Q ss_pred hHHHHHHHHHhhhhhhhcCChhHhHhhhcCCCCchHHHHHHHHhhhccC--ChhhhhhH----HHHHhhHHHHHHhhccC
Q 026211 136 YLQDLVYKLSKVGEAIEKNDLAAASSVLGRSTETDWVQKANQAFTKLSS--SPEEMTEV----DAFNSSLASLISSVTKN 209 (241)
Q Consensus 136 yvQdaVYKLSKvGqAIe~gDL~~AasvLg~~~d~dWV~~~~~Af~klSs--s~eek~~~----dtF~sSlasL~ssv~~g 209 (241)
.+|.+--.|.+....|+++|....-+.+-+. .+++..-.+.+.. .|++|+++ ..+...|..|=-+...+
T Consensus 44 ~i~~~~~r~~eLk~lI~kk~W~~vrn~irgp-----~g~Lr~dl~~l~~sl~p~dqk~a~~L~~~Lf~~L~~LD~AA~~k 118 (142)
T TIGR03042 44 GIEAAKDRLPELASLVAKEDWVFTRNLIHGP-----MGEVRREMTYLNQSLLPKDQKEALALAKELKDDLEKLDEAARLQ 118 (142)
T ss_pred HHHHHHHhhHHHHHHHhhcchHHHHHHHhcc-----HHHHHHHHHHHHHccCHHhHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3566778899999999999999988888653 3333333333333 35555554 56678888999999999
Q ss_pred chhhhHHHHHhhhHHHHHHHHh
Q 026211 210 DIESSKVAFVASASAFEKWTSL 231 (241)
Q Consensus 210 D~~ssK~AFVsSA~ALe~Was~ 231 (241)
|...+-.+|--.+.+|.++..+
T Consensus 119 d~~~a~k~Y~~av~~~dafl~~ 140 (142)
T TIGR03042 119 DGPQAQKAYQKAAADFDAYLDL 140 (142)
T ss_pred CHHHHHHHHHHHHHHHHHHHhh
Confidence 9999999999999999988653
No 2
>PLN00054 photosystem I reaction center subunit N; Provisional
Probab=73.97 E-value=4.2 Score=34.91 Aligned_cols=45 Identities=29% Similarity=0.448 Sum_probs=29.7
Q ss_pred chhhhHHHHHHHHHHhhhCCCCCCCccccccccccccChHHHHHHHHHHH----HHHHHHh
Q 026211 68 KRNLSISFITGFVFSSLAGGGNGKGCFDANAAILEAEDDEELLEKVKKDR----KKRLEKQ 124 (241)
Q Consensus 68 rR~~s~~llas~~~~~la~~~~~~~~~~a~aALLeaDDDEELLEKvK~dR----kkRLqkQ 124 (241)
||...++|.+.|+.. .+ ...+|++.+| +|||||-|+|+ ||||.--
T Consensus 30 rraa~~~Laa~l~~~-aa------~~~~AnAgv~-----~d~L~kS~aNKeLNDKKRlATS 78 (139)
T PLN00054 30 RRAALVGLAATLFST-AA------AAASANAGVI-----SDLLAKSKANKELNDKKRLATS 78 (139)
T ss_pred hHHHHHHHHHHHHHH-Hh------cccccchhHH-----HHHHHHhhhhhhhhhHHhhhhc
Confidence 777776655543333 22 2356777777 58999999976 6787653
No 3
>PF05757 PsbQ: Oxygen evolving enhancer protein 3 (PsbQ); InterPro: IPR008797 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 []. In PSII, the oxygen-evolving complex (OEC) is responsible for catalysing the splitting of water to O(2) and 4H+. The OEC is composed of a cluster of manganese, calcium and chloride ions bound to extrinsic proteins. In cyanobacteria there are five extrinsic proteins in OEC (PsbO, PsbP-like, PsbQ-like, PsbU and PsbV), while in plants there are only three (PsbO, PsbP and PsbQ), PsbU and PsbV having been lost during the evolution of green plants []. This family represents the PSII OEC protein PsbQ. Both PsbQ and PsbP (IPR002683 from INTERPRO) are regulators that are necessary for the biogenesis of optically active PSII. The crystal structure of PsbQ from spinach revealed a 4-helical bundle polypeptide. The distribution of positive and negative charges on the protein surface might explain the ability of PsbQ to increase the binding of chloride and calcium ions and make them available to PSII [].; GO: 0005509 calcium ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0019898 extrinsic to membrane; PDB: 1VYK_A 1NZE_A 3LS1_A 3LS0_A.
Probab=56.69 E-value=85 Score=28.12 Aligned_cols=92 Identities=11% Similarity=0.151 Sum_probs=68.4
Q ss_pred hHHHHHHHHHhhhhhhhcCChhHhHhhhcCCCCchHHHHHHHHhhhccCChhhhhh----HHHHHhhHHHHHHhhccCch
Q 026211 136 YLQDLVYKLSKVGEAIEKNDLAAASSVLGRSTETDWVQKANQAFTKLSSSPEEMTE----VDAFNSSLASLISSVTKNDI 211 (241)
Q Consensus 136 yvQdaVYKLSKvGqAIe~gDL~~AasvLg~~~d~dWV~~~~~Af~klSss~eek~~----~dtF~sSlasL~ssv~~gD~ 211 (241)
.+.+.-..|..++..||+.+....-..|=... ..==++++.....+ ..++|.. ...|+.++..|--++..+|.
T Consensus 104 Rik~sa~~L~~lk~lIdk~sW~~v~~~LRlka-~~Lr~DL~~liss~--p~~~kk~l~~La~~lf~~ie~LD~Aar~K~~ 180 (202)
T PF05757_consen 104 RIKESAKRLLSLKELIDKKSWPYVRNYLRLKA-GYLRYDLNTLISSK--PKDEKKALTDLANKLFDNIEELDYAARSKDV 180 (202)
T ss_dssp HHHHHHHHHCCCHHHHHTT-HHHHHHHHHCCC-CCHHHHHHHHHCCS---HHHHHHHHHHHHHHHHHHHHHHHHHHTT-H
T ss_pred HHHHHHHHHHHHHHHHhhccHHHHHHHHHHHH-hHHHHHHHHHHHhC--CHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH
Confidence 45556777888999999999999988886532 22335655554443 2344433 58999999999999999999
Q ss_pred hhhHHHHHhhhHHHHHHHH
Q 026211 212 ESSKVAFVASASAFEKWTS 230 (241)
Q Consensus 212 ~ssK~AFVsSA~ALe~Was 230 (241)
..+..+|=-.+.+|.++.+
T Consensus 181 ~~a~~~Y~~t~~~Ldevla 199 (202)
T PF05757_consen 181 PEAEKYYADTVKALDEVLA 199 (202)
T ss_dssp HHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 9999999999999998865
No 4
>PF14276 DUF4363: Domain of unknown function (DUF4363)
Probab=55.78 E-value=28 Score=27.13 Aligned_cols=71 Identities=27% Similarity=0.332 Sum_probs=53.9
Q ss_pred HHHHHHHHhhhhhhhcCChhHhHhhhcCCCCchHHHHHHHHhhhccCChhhhhhHHHHHhhHHHHHHhhccCchhhh
Q 026211 138 QDLVYKLSKVGEAIEKNDLAAASSVLGRSTETDWVQKANQAFTKLSSSPEEMTEVDAFNSSLASLISSVTKNDIESS 214 (241)
Q Consensus 138 QdaVYKLSKvGqAIe~gDL~~AasvLg~~~d~dWV~~~~~Af~klSss~eek~~~dtF~sSlasL~ssv~~gD~~ss 214 (241)
++...+|..+-+.|+++|...|-..+-. ....|-.. -..++-. -+..+.|.+..+++.|...+..+|.+.+
T Consensus 26 ~~i~~~l~~i~~~i~~~dW~~A~~~~~~-l~~~W~k~----~~~~~~~-~~h~eid~i~~sl~rl~~~i~~~dk~~~ 96 (121)
T PF14276_consen 26 DSIEEQLEQIEEAIENEDWEKAYKETEE-LEKEWDKN----KKRWSIL-IEHQEIDNIDISLARLKGYIEAKDKSES 96 (121)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHH-HHHHHHhh----chheeee-ecHHHHHHHHHHHHHHHHHHHCCCHHHH
Confidence 4566788999999999999999887765 33567665 3333333 3477899999999999999999986543
No 5
>PHA03171 UL37 tegument protein; Provisional
Probab=52.90 E-value=12 Score=37.40 Aligned_cols=43 Identities=28% Similarity=0.509 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHh-hhhhhhhhhhhhHHHHHHHH-HhhhhhhhcCC
Q 026211 113 VKKDRKKRLEKQ-SALSSSMKEKGYLQDLVYKL-SKVGEAIEKND 155 (241)
Q Consensus 113 vK~dRkkRLqkQ-~vi~s~~~EtgyvQdaVYKL-SKvGqAIe~gD 155 (241)
.++.|+-|||+| |||..++-||..--|+|.-| .+.|+--+-+|
T Consensus 46 ~~~~~r~rl~rq~gvi~ge~~~~e~~~dl~~al~~~~g~e~~~~~ 90 (499)
T PHA03171 46 LRQQRRHRLQRQHGVIDGENSETERPRDLTAALFAEAGEEAEEED 90 (499)
T ss_pred HHHHHHHHHHHhcCcccCCCccccccHHHHHHHHHhhchhhhhcC
Confidence 456788899999 89999999999988988765 77887665554
No 6
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=51.99 E-value=9.4 Score=30.05 Aligned_cols=31 Identities=32% Similarity=0.563 Sum_probs=22.4
Q ss_pred cccccccccccChHHHHHHHHHHHHHHHHHh
Q 026211 94 FDANAAILEAEDDEELLEKVKKDRKKRLEKQ 124 (241)
Q Consensus 94 ~~a~aALLeaDDDEELLEKvK~dRkkRLqkQ 124 (241)
.....-+|+.|+.++-.+|+.++|++|+.+.
T Consensus 70 ~~~~~~vLeGeeE~~Yw~ki~e~~~~k~~~~ 100 (105)
T PF08777_consen 70 KEVTLEVLEGEEEEEYWKKIIEDRQKKRNKK 100 (105)
T ss_dssp SSEEEE---HHHHHHHHHHHHHHHHHHH---
T ss_pred ceEEEEECCCHHHHHHHHHHHHHHHHHHhcc
Confidence 4556789999999999999999999999753
No 7
>PLN02999 photosystem II oxygen-evolving enhancer 3 protein (PsbQ)
Probab=51.75 E-value=1.9e+02 Score=26.28 Aligned_cols=163 Identities=15% Similarity=0.140 Sum_probs=90.0
Q ss_pred CCCCceecc-----cc-cchhhHHHHHHHhhcCCCCCCCCCcccchhhhHHHHHHHHHHhhhCCCCCCCccccccc----
Q 026211 30 LSNPTLIHI-----HK-HNSKRQQQAICKAFTQSPTPAPLPSITKRNLSISFITGFVFSSLAGGGNGKGCFDANAA---- 99 (241)
Q Consensus 30 ~~~~~~~~~-----~~-~~~~r~~~~~~k~~~~~~~p~~sp~i~rR~~s~~llas~~~~~la~~~~~~~~~~a~aA---- 99 (241)
.+++.++|| +. |+.++.+-++|-.++ | ...+-+||-+-..||+.-++- +. .+ |++++
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~-~~~~~~rr~~~~~~l~~~~~~-~~---~~----~~~~~e~~G 70 (190)
T PLN02999 4 FTTTNTPPPYLLRKIYHRRVNQPFSVVCCTGE----P-QQDIFTRRRTLTSLITFTVIG-GA---TS----SALAQEKWG 70 (190)
T ss_pred ccCCCCCCcccccccccccccCcchhhhcCCC----c-hhhhHHHHHHHHHHHHHHHHh-hc---cC----cHHHHhhhh
Confidence 455556666 22 366777766666554 2 444777887776777665433 22 12 22221
Q ss_pred ---------cccccChHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHhhhhhhhcCChhHhHhhhcCCCCch
Q 026211 100 ---------ILEAEDDEELLEKVKKDRKKRLEKQSALSSSMKEKGYLQDLVYKLSKVGEAIEKNDLAAASSVLGRSTETD 170 (241)
Q Consensus 100 ---------LLeaDDDEELLEKvK~dRkkRLqkQ~vi~s~~~EtgyvQdaVYKLSKvGqAIe~gDL~~AasvLg~~~d~d 170 (241)
-+|+=.-||-..++|+-=+.=+.=...|.. +--.|||..+-.= +..=+=||..+.+..-++ +
T Consensus 71 tRsfLKerfy~p~lspeeAaaRiK~sA~dLl~vK~LId~--~aW~YVq~~LRlk----asyLryDL~tiIsskP~~---e 141 (190)
T PLN02999 71 TRSFIKEKYFMPGLSPEDAAARIKQTAEGLRDMREMLDH--MSWRYVIFYIRLK----QAYLSQDLTNAMNILPES---R 141 (190)
T ss_pred hHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHhcc--ccHHHHHHHHHHH----HHHHHHHHHHHHhcCCHh---h
Confidence 234444444444444433222222222221 2235888755321 223344666666665432 2
Q ss_pred HHHHHHHHhhhccCChhhhhhHHHHHhhHHHHHHhhccCchhhhHHHHHhhhHHHHHH
Q 026211 171 WVQKANQAFTKLSSSPEEMTEVDAFNSSLASLISSVTKNDIESSKVAFVASASAFEKW 228 (241)
Q Consensus 171 WV~~~~~Af~klSss~eek~~~dtF~sSlasL~ssv~~gD~~ssK~AFVsSA~ALe~W 228 (241)
+-+ + +.-.+.+..++..|--++..+|+-.+...|=-.+.+|.+-
T Consensus 142 K~~-----L---------~~LankLFdnvt~LDyAAR~K~~~eae~yY~~Tv~slddV 185 (190)
T PLN02999 142 RND-----Y---------VQAANELVENMSELDYYVRTPKVYESYLYYEKTLKSIDNV 185 (190)
T ss_pred hHH-----H---------HHHHHHHhhhHHHHHHHHhcCChHHHHHHHHHHHHHHHHH
Confidence 211 1 2225677888999999999999999999998777777654
No 8
>PF08781 DP: Transcription factor DP; InterPro: IPR014889 DP forms a heterodimer with E2F and regulates genes involved in cell cycle progression. The transcriptional activity of E2F is inhibited by the retinoblastoma protein which binds to the E2F-DP heterodimer [] and negatively regulates the G1-S transition. ; PDB: 2AZE_A.
Probab=51.43 E-value=23 Score=30.28 Aligned_cols=27 Identities=41% Similarity=0.626 Sum_probs=17.4
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHH
Q 026211 106 DEELLEKVKKDRKKRLEKQSALSSSMKEKGYLQDLV 141 (241)
Q Consensus 106 DEELLEKvK~dRkkRLqkQ~vi~s~~~EtgyvQdaV 141 (241)
|-|-||.-|..|+.||++ .+.|||+++
T Consensus 2 ~~~~Le~ek~~~~~rI~~---------K~~~LqEL~ 28 (142)
T PF08781_consen 2 ECEELEEEKQRRRERIKK---------KKEQLQELI 28 (142)
T ss_dssp HHHHHHHHHHHHHHHHHH---------HHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHH---------HHHHHHHHH
Confidence 345677777778888866 345666644
No 9
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=50.83 E-value=1.5e+02 Score=29.28 Aligned_cols=77 Identities=19% Similarity=0.215 Sum_probs=50.1
Q ss_pred ccccccChHHHHHHHHHHHHHHHHHhh-hhhhhhhhhhhHHHHHHHHHhhhhhhhc--CChhHhHhhhcCCCCchHHHHH
Q 026211 99 AILEAEDDEELLEKVKKDRKKRLEKQS-ALSSSMKEKGYLQDLVYKLSKVGEAIEK--NDLAAASSVLGRSTETDWVQKA 175 (241)
Q Consensus 99 ALLeaDDDEELLEKvK~dRkkRLqkQ~-vi~s~~~EtgyvQdaVYKLSKvGqAIe~--gDL~~AasvLg~~~d~dWV~~~ 175 (241)
..|.+.=-+...||+++-|+++++++- .+++.+.-.-=|..-..||-..=+.||. -+|....+||+ +||+++
T Consensus 205 ~~irasvisa~~eklR~r~eeeme~~~aeq~slkRt~EeL~~G~~kL~~~~etLEqq~~~L~~niDIL~-----~k~~ea 279 (365)
T KOG2391|consen 205 LVIRASVISAVREKLRRRREEEMERLQAEQESLKRTEEELNIGKQKLVAMKETLEQQLQSLQKNIDILK-----SKVREA 279 (365)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHHhhhHHHH-----HHHHHH
Confidence 345555555566789999999998774 3444443333444555666666666664 46788899998 699994
Q ss_pred HHHhh
Q 026211 176 NQAFT 180 (241)
Q Consensus 176 ~~Af~ 180 (241)
..-.+
T Consensus 280 l~~~~ 284 (365)
T KOG2391|consen 280 LEKAE 284 (365)
T ss_pred Hhhhc
Confidence 44333
No 10
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=44.51 E-value=58 Score=22.13 Aligned_cols=19 Identities=32% Similarity=0.314 Sum_probs=16.2
Q ss_pred hHHHHHHHHhhhccCChhh
Q 026211 170 DWVQKANQAFTKLSSSPEE 188 (241)
Q Consensus 170 dWV~~~~~Af~klSss~ee 188 (241)
||..++..|...|++++.|
T Consensus 1 d~~~d~~~AL~~LGy~~~e 19 (47)
T PF07499_consen 1 DALEDALEALISLGYSKAE 19 (47)
T ss_dssp HHHHHHHHHHHHTTS-HHH
T ss_pred CHHHHHHHHHHHcCCCHHH
Confidence 7999999999999999764
No 11
>cd07625 BAR_Vps17p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps17p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp17p forms a dimer with Vps5p, the yeast counterpart of human SNX1, and is part of the retromer complex that mediates the transport of the carboxypeptidase Y receptor Vps10p from endosomes to Golgi. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=42.28 E-value=2.3e+02 Score=25.68 Aligned_cols=114 Identities=15% Similarity=0.140 Sum_probs=73.0
Q ss_pred ccccChHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHhhhhh--hhcCChhHhHhhhcCCCCchHHHHHHHH
Q 026211 101 LEAEDDEELLEKVKKDRKKRLEKQSALSSSMKEKGYLQDLVYKLSKVGEA--IEKNDLAAASSVLGRSTETDWVQKANQA 178 (241)
Q Consensus 101 LeaDDDEELLEKvK~dRkkRLqkQ~vi~s~~~EtgyvQdaVYKLSKvGqA--Ie~gDL~~AasvLg~~~d~dWV~~~~~A 178 (241)
.|+||++||-|- +-++.+.+.-..-++..|-+|.|.-.. +.-+||..+...||.--+ ..-+..|
T Consensus 12 ~p~d~~~el~~~-----------rp~vk~~y~~~~~l~~~~~~lvk~rr~La~~~~dfg~~l~~Ls~~E~---~~~L~~a 77 (230)
T cd07625 12 PPYDEYTELAEF-----------RPLVKSIYLTAQDLQEKLLRVSKARKQLSLEEADFGQKLIQLSVEET---HHGLGNL 77 (230)
T ss_pred cCCCCCHHHHHh-----------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc---cchHHHH
Confidence 366999998652 114446666666777888888887654 445688888888875311 1123345
Q ss_pred hhhccC---------ChhhhhhHHHHHhhHHHHHHhhccCchhhhHHHHHhhhHHHHHHHHhhc
Q 026211 179 FTKLSS---------SPEEMTEVDAFNSSLASLISSVTKNDIESSKVAFVASASAFEKWTSLTG 233 (241)
Q Consensus 179 f~klSs---------s~eek~~~dtF~sSlasL~ssv~~gD~~ssK~AFVsSA~ALe~Was~tG 233 (241)
+.+|+. ....-.+..+|.+.|...+ +|+-..|-+|--=...++.|..+-.
T Consensus 78 ~~kLg~v~~~v~dl~~~QA~~d~~tl~d~L~~~~-----~~~~~vKealtnR~~~~re~~qAq~ 136 (230)
T cd07625 78 YEKFGKVLTAVGDIDSIQATVDMATLYDGLEWIS-----RDAYVVKEALTNRHLLMRELIQAQQ 136 (230)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555552 2223344566777776655 4677888888888888888876543
No 12
>cd02988 Phd_like_VIAF Phosducin (Phd)-like family, Viral inhibitor of apoptosis (IAP)-associated factor (VIAF) subfamily; VIAF is a Phd-like protein that functions in caspase activation during apoptosis. It was identified as an IAP binding protein through a screen of a human B-cell library using a prototype IAP. VIAF lacks a consensus IAP binding motif and while it does not function as an IAP antagonist, it still plays a regulatory role in the complete activation of caspases. VIAF itself is a substrate for IAP-mediated ubiquitination, suggesting that it may be a target of IAPs in the prevention of cell death. The similarity of VIAF to Phd points to a potential role distinct from apoptosis regulation. Phd functions as a cytosolic regulator of G protein by specifically binding to G protein betagamma (Gbg)-subunits. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.
Probab=40.10 E-value=29 Score=29.81 Aligned_cols=25 Identities=24% Similarity=0.533 Sum_probs=15.5
Q ss_pred ccccccChHHHHHHHHHHHHHHHHH
Q 026211 99 AILEAEDDEELLEKVKKDRKKRLEK 123 (241)
Q Consensus 99 ALLeaDDDEELLEKvK~dRkkRLqk 123 (241)
++++.|||++.||+.|+.|-+-|.+
T Consensus 50 ~~~d~~~d~~~Le~yR~kRl~el~~ 74 (192)
T cd02988 50 EELDEEEDDRFLEEYRRKRLAEMKA 74 (192)
T ss_pred HhhcccccHHHHHHHHHHHHHHHHH
Confidence 4455566666899876655555544
No 13
>PF08372 PRT_C: Plant phosphoribosyltransferase C-terminal; InterPro: IPR013583 This domain is found at the C terminus of phosphoribosyltransferases and phosphoribosyltransferase-like proteins. It contains putative transmembrane regions. It often appears together with calcium-ion dependent C2 domains (IPR000008 from INTERPRO).
Probab=36.61 E-value=56 Score=28.15 Aligned_cols=44 Identities=25% Similarity=0.309 Sum_probs=27.4
Q ss_pred ccccChHHHHH-------HHHHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHhhhhhhhc
Q 026211 101 LEAEDDEELLE-------KVKKDRKKRLEKQSALSSSMKEKGYLQDLVYKLSKVGEAIEK 153 (241)
Q Consensus 101 LeaDDDEELLE-------KvK~dRkkRLqkQ~vi~s~~~EtgyvQdaVYKLSKvGqAIe~ 153 (241)
-++|+|||+=. ++-+.|=.||+. -.+-||..+-.++-.|+.|.+
T Consensus 37 ~~deldEEfD~~ps~~~~~~lr~Rydrlr~---------va~rvQ~vlgd~At~gERl~a 87 (156)
T PF08372_consen 37 HPDELDEEFDTFPSSRPPDSLRMRYDRLRS---------VAGRVQNVLGDVATQGERLQA 87 (156)
T ss_pred CcchhhhhhcccccccccHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHH
Confidence 45567888732 222334444443 236799999999988887753
No 14
>PRK10378 inactive ferrous ion transporter periplasmic protein EfeO; Provisional
Probab=35.55 E-value=74 Score=30.90 Aligned_cols=45 Identities=18% Similarity=0.360 Sum_probs=36.5
Q ss_pred hhhHHHHHhhHHHHHHhhccCchhhhHHHHHhhhHHHHHHHHhhc
Q 026211 189 MTEVDAFNSSLASLISSVTKNDIESSKVAFVASASAFEKWTSLTG 233 (241)
Q Consensus 189 k~~~dtF~sSlasL~ssv~~gD~~ssK~AFVsSA~ALe~Was~tG 233 (241)
+.+++.|......+..+|..||++.||.+|..+=-..|.---.++
T Consensus 144 ~~q~~~L~~~t~~f~~Av~aGdl~~Ak~~y~~aR~~YERiePiae 188 (375)
T PRK10378 144 TAEVTQLVTDTKAFTDAVKAGDIEKAKALYAPTRQHYERIEPIAE 188 (375)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCHHHHHHhHHHHHHHHHHHHHHHH
Confidence 567889999999999999999999999999887665555443333
No 15
>PF02114 Phosducin: Phosducin; InterPro: IPR024253 The outer and inner segments of vertebrate rod photoreceptor cells contain phosducin, a soluble phosphoprotein that complexes with the beta/gamma-subunits of the GTP-binding protein, transducin. Light-induced changes in cyclic nucleotide levels modulate the phosphorylation of phosducin by protein kinase A []. The protein is thought to participate in the regulation of visual phototransduction or in the integration of photo-receptor metabolism. Similar proteins have been isolated from the pineal gland and it is believed that the functional role of the protein is the same in both retina and pineal gland []. This entry represents a domain found in members of the phosducin family. This domain has a thioredoxin-like fold [].; PDB: 2DBC_A 1A0R_P 1B9Y_C 1B9X_C 2TRC_P 3EVI_B.
Probab=35.26 E-value=38 Score=30.84 Aligned_cols=21 Identities=38% Similarity=0.708 Sum_probs=12.6
Q ss_pred ccChHHHHHHHHHHHHHHHHH
Q 026211 103 AEDDEELLEKVKKDRKKRLEK 123 (241)
Q Consensus 103 aDDDEELLEKvK~dRkkRLqk 123 (241)
++|||++|++-++.|-+.|++
T Consensus 96 d~eDeefL~~yR~qRm~El~~ 116 (265)
T PF02114_consen 96 DEEDEEFLEQYREQRMQELKQ 116 (265)
T ss_dssp ----HHHHHHHHHHHHHHHHH
T ss_pred ccccHHHHHHHHHHHHHHHHH
Confidence 578899998877766666654
No 16
>PF14577 SEO_C: Sieve element occlusion C-terminus
Probab=33.87 E-value=54 Score=30.17 Aligned_cols=45 Identities=29% Similarity=0.404 Sum_probs=31.9
Q ss_pred hcCCCCchHHHHHHHHhhhcc--------------CCh--------------------hhhhhHHHHHhhHHHHHHhhc
Q 026211 163 LGRSTETDWVQKANQAFTKLS--------------SSP--------------------EEMTEVDAFNSSLASLISSVT 207 (241)
Q Consensus 163 Lg~~~d~dWV~~~~~Af~klS--------------ss~--------------------eek~~~dtF~sSlasL~ssv~ 207 (241)
|=+|.|-+|||+|+.++.++. ++| +..+.+-.|---|.|+..+-.
T Consensus 38 iYGG~D~eWIq~Ft~~a~~va~~a~i~LEm~yvGKsn~~e~v~~~~~~i~~e~ls~~~~d~t~v~~FW~rlESm~~SK~ 116 (235)
T PF14577_consen 38 IYGGEDMEWIQEFTKAARKVAKAADIQLEMVYVGKSNPREQVRKIIATITSEKLSHSWEDPTMVWFFWTRLESMLFSKI 116 (235)
T ss_pred EECCCCHHHHHHHHHHHHHHHHhcCCceEEEEecCCChHHHHHHHhhhhhhcccccccCCcchhHHHHHHHHHHHHHHH
Confidence 334578899999998888775 121 556777778888888776654
No 17
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=33.54 E-value=35 Score=25.53 Aligned_cols=36 Identities=25% Similarity=0.369 Sum_probs=20.7
Q ss_pred hhHHHHHHHHHHhhhCCCCCCCccccccccccccChHH
Q 026211 71 LSISFITGFVFSSLAGGGNGKGCFDANAAILEAEDDEE 108 (241)
Q Consensus 71 ~s~~llas~~~~~la~~~~~~~~~~a~aALLeaDDDEE 108 (241)
+.+||++.+... +- -++-.....|+.++|+-+||++
T Consensus 18 ~~l~fiavi~~a-yr-~~~K~~~d~aa~~~l~l~Dd~q 53 (60)
T COG4736 18 FTLFFIAVIYFA-YR-PGKKGEFDEAARGILPLNDDAQ 53 (60)
T ss_pred HHHHHHHHHHHH-hc-ccchhhHHHHhccCCCCCcchh
Confidence 345667665555 32 2222224556677788888876
No 18
>KOG4133 consensus tRNA splicing endonuclease [Translation, ribosomal structure and biogenesis]
Probab=33.24 E-value=67 Score=30.62 Aligned_cols=65 Identities=32% Similarity=0.408 Sum_probs=40.8
Q ss_pred HHHHHHHHH---HHHHHHHHh-hhhhhhh--hhhhhHHHHHHHHHhhhhhhhcCChhHhHhhhcCCCCchHHHH
Q 026211 107 EELLEKVKK---DRKKRLEKQ-SALSSSM--KEKGYLQDLVYKLSKVGEAIEKNDLAAASSVLGRSTETDWVQK 174 (241)
Q Consensus 107 EELLEKvK~---dRkkRLqkQ-~vi~s~~--~EtgyvQdaVYKLSKvGqAIe~gDL~~AasvLg~~~d~dWV~~ 174 (241)
-++|||.-+ |.++||++| +...+.. .-+.|--+-.--..|.|+..++|-+..+ ||.+.+-.|+.+
T Consensus 87 k~~leKite~~a~~kq~le~q~~a~k~q~i~~~kk~~e~~~~~~~k~g~~~~k~p~n~q---l~ds~~l~~ip~ 157 (290)
T KOG4133|consen 87 KELLEKITEGQADKKQKLEQQSGASKDQEIASSKKAKEKETSDGQKSGEQLEKGPLNSQ---LGDSNGLAPIPR 157 (290)
T ss_pred HHHHHHHHhhHHHHHHHHHHHhhcchhHHHHHHHhhhhhhhhhHHHHhhhcCCCCchhh---hccccceeecch
Confidence 378888755 778899887 4432221 1123333444556788999999988654 566655567654
No 19
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=31.94 E-value=1.1e+02 Score=25.87 Aligned_cols=26 Identities=27% Similarity=0.432 Sum_probs=19.4
Q ss_pred HHHHHHHHhhhhhhhcCChhHhHhhh
Q 026211 138 QDLVYKLSKVGEAIEKNDLAAASSVL 163 (241)
Q Consensus 138 QdaVYKLSKvGqAIe~gDL~~AasvL 163 (241)
+..+-||...-+||+.+|+.+|-.+-
T Consensus 88 ~~v~~~L~~L~~aL~~~d~~~A~~Ih 113 (157)
T PF07304_consen 88 KPVVDKLHQLAQALQARDYDAADEIH 113 (157)
T ss_dssp HHHHHHHHHHHHHHHHT-HHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence 33667777778899999999997653
No 20
>KOG4031 consensus Vesicle coat protein clathrin, light chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.46 E-value=78 Score=29.12 Aligned_cols=33 Identities=30% Similarity=0.457 Sum_probs=26.3
Q ss_pred cccccccccc---cChHHHHHHHHHHHHHHHHHhhh
Q 026211 94 FDANAAILEA---EDDEELLEKVKKDRKKRLEKQSA 126 (241)
Q Consensus 94 ~~a~aALLea---DDDEELLEKvK~dRkkRLqkQ~v 126 (241)
++.-++|-++ .++.|-+.|-|+++++|||....
T Consensus 89 ~d~~a~is~~~~~~~epE~IRkWkeeQ~~rl~ekD~ 124 (216)
T KOG4031|consen 89 ADGYAGISQGPRLRDEPEKIRKWKEEQMKRLQEKDE 124 (216)
T ss_pred cccccccCCCCCcccChHHHHHHHHHHHHHHHHhhh
Confidence 4445577777 67899999999999999987653
No 21
>cd02987 Phd_like_Phd Phosducin (Phd)-like family, Phd subfamily; Phd is a cytosolic regulator of G protein functions. It specifically binds G protein betagamma (Gbg)-subunits with high affinity, resulting in the solubilization of Gbg from the plasma membrane. This impedes the formation of a functional G protein trimer (G protein alphabetagamma), thereby inhibiting G protein-mediated signal transduction. Phd also inhibits the GTPase activity of G protein alpha. Phd can be phosphorylated by protein kinase A and G protein-coupled receptor kinase 2, leading to its inactivation. Phd was originally isolated from the retina, where it is highly expressed and has been implicated to play an important role in light adaptation. It is also found in the pineal gland, liver, spleen, striated muscle and the brain. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.
Probab=31.14 E-value=46 Score=27.97 Aligned_cols=18 Identities=22% Similarity=0.549 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 026211 107 EELLEKVKKDRKKRLEKQ 124 (241)
Q Consensus 107 EELLEKvK~dRkkRLqkQ 124 (241)
|+.||+.|+.|-+-|+++
T Consensus 37 e~~l~~~R~~R~~el~~~ 54 (175)
T cd02987 37 EEFLQQYREQRMQEMHAK 54 (175)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 569999877777777664
No 22
>COG4829 CatC1 Muconolactone delta-isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=30.73 E-value=58 Score=26.71 Aligned_cols=30 Identities=20% Similarity=0.321 Sum_probs=23.2
Q ss_pred cccccChHHHHHHHHHHH---HHHHHHhhhhhh
Q 026211 100 ILEAEDDEELLEKVKKDR---KKRLEKQSALSS 129 (241)
Q Consensus 100 LLeaDDDEELLEKvK~dR---kkRLqkQ~vi~s 129 (241)
.+|++=|.+-+|++|+.- ..|||+||.+..
T Consensus 10 ~~PdsMdad~~er~~A~Eka~s~~Lq~~G~~~~ 42 (98)
T COG4829 10 RVPDSMDADAVERVRAREKARSRELQAQGKLLR 42 (98)
T ss_pred EcCCCCCHHHHHHHHHHHHHHHHHHHhcchHHH
Confidence 468888999999998764 457899986544
No 23
>PLN00078 photosystem I reaction center subunit N (PsaN); Provisional
Probab=28.26 E-value=56 Score=27.60 Aligned_cols=45 Identities=27% Similarity=0.455 Sum_probs=26.6
Q ss_pred cccchhhhHHHHHHHHHHhhhCCCCCCCccccccccccccChHHHHHHHHHHHHHHHH
Q 026211 65 SITKRNLSISFITGFVFSSLAGGGNGKGCFDANAAILEAEDDEELLEKVKKDRKKRLE 122 (241)
Q Consensus 65 ~i~rR~~s~~llas~~~~~la~~~~~~~~~~a~aALLeaDDDEELLEKvK~dRkkRLq 122 (241)
-|+||.+- .||++-++. .-|++.+| -.+| ++||+|-++||.|+=+
T Consensus 33 g~srr~ll-t~l~staai-p~~~~~Sr------~~li-----q~llkkSeeNKakndk 77 (122)
T PLN00078 33 GISRRCLL-TFLTSTAAI-PEAGSESR------KALL-----QEYLKKSEENKEKNDK 77 (122)
T ss_pred chhHHHHH-HHHHhhccC-CCCcCchH------HHHH-----HHHHHHhHHhHHHhHH
Confidence 57788765 555554444 33344443 2444 4788888888876543
No 24
>KOG2829 consensus E2F-like protein [Transcription]
Probab=27.04 E-value=91 Score=30.20 Aligned_cols=58 Identities=24% Similarity=0.378 Sum_probs=35.3
Q ss_pred CCCccccccccccccChHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHhhhhhhhcC
Q 026211 90 GKGCFDANAAILEAEDDEELLEKVKKDRKKRLEKQSALSSSMKEKGYLQDLVYKLSKVGEAIEKN 154 (241)
Q Consensus 90 ~~~~~~a~aALLeaDDDEELLEKvK~dRkkRLqkQ~vi~s~~~EtgyvQdaVYKLSKvGqAIe~g 154 (241)
++-...-.--.||+-+-.+ +++++++|++|+++ -.+.+.|+|+++-+-+----.++.|
T Consensus 115 sKdKKEIrW~GLP~~ss~d-v~~le~Er~k~~er------I~kK~a~lqEl~~q~~~fknLV~RN 172 (326)
T KOG2829|consen 115 SKDKKEIRWIGLPATSSQD-VSELEEERKKRMER------IKKKAAQLQELIEQVSAFKNLVQRN 172 (326)
T ss_pred hcccceeeeeccCccchHH-HHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3333444445566544444 56788888888874 4566788998887765444444444
No 25
>PF07293 DUF1450: Protein of unknown function (DUF1450); InterPro: IPR009910 This entry consists of several hypothetical bacterial proteins of around 80 residues in length representing two families. Members contain four highly conserved cysteine residues and their function is unknown.
Probab=25.02 E-value=48 Score=25.66 Aligned_cols=17 Identities=59% Similarity=0.804 Sum_probs=15.2
Q ss_pred ccccccChHHHHHHHHH
Q 026211 99 AILEAEDDEELLEKVKK 115 (241)
Q Consensus 99 ALLeaDDDEELLEKvK~ 115 (241)
-++.+++-|||++|+++
T Consensus 54 ~~V~A~t~eeL~~kI~~ 70 (78)
T PF07293_consen 54 EIVAAETAEELLEKIKE 70 (78)
T ss_pred EEEecCCHHHHHHHHHH
Confidence 58899999999999975
No 26
>PF03232 COQ7: Ubiquinone biosynthesis protein COQ7; InterPro: IPR011566 Coq7 (also known as Clk-1) is a di-iron carboxylate protein occuring in both prokaryotes and eukaryotes that is essential for ubiquinone biosynthesis [, ]. It has been implicated in the aging process as mutations in the Caenorhabditis elegans gene lead to increased lifespan []. Coq7 is a membrane-bound protein that functions as a monooxygenase to hydroxylate demethoxyubiquinone (2-methoxy-5-methyl-6-polyprenyl-1,4-benzoquinone) in the penultimate step of ubiquinone biosynthesis []. Biochemical studies indicate that NADH can serve directly as a reductant for catalytic activation of dioxygen and substrate oxidation by the enzyme, with no requirement for an additional reductase protein component []. This direct reaction with NADH is so far unique amongst members of the di-iron carboxylate protein family. This entry is specific for the bacterial Coq7 proteins.; GO: 0006744 ubiquinone biosynthetic process, 0055114 oxidation-reduction process
Probab=24.57 E-value=1.6e+02 Score=25.50 Aligned_cols=47 Identities=26% Similarity=0.267 Sum_probs=36.3
Q ss_pred cChHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHhhhhh
Q 026211 104 EDDEELLEKVKKDRKKRLEKQSALSSSMKEKGYLQDLVYKLSKVGEA 150 (241)
Q Consensus 104 DDDEELLEKvK~dRkkRLqkQ~vi~s~~~EtgyvQdaVYKLSKvGqA 150 (241)
++|++|.+.+++-|..-++-...-.....+..+.-.+++.+.|.|-.
T Consensus 117 ~~d~~l~~~i~~~r~DE~~H~d~A~~~~a~~~p~~~~l~~~i~~~~~ 163 (172)
T PF03232_consen 117 EEDPELRAIIEQFRDDELEHRDTAIEAGAEKAPAYRLLSAVIKAGCK 163 (172)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHCCCCcCcHHHHHHHHHHHHHH
Confidence 68999999999999988877665555555667777888888887754
No 27
>PRK04654 sec-independent translocase; Provisional
Probab=23.45 E-value=69 Score=29.32 Aligned_cols=46 Identities=22% Similarity=0.402 Sum_probs=33.2
Q ss_pred CChhHhHhhhcCCCCchHHHHHHHHhhhccCChhhhhhHHHHHhhHHHHHH
Q 026211 154 NDLAAASSVLGRSTETDWVQKANQAFTKLSSSPEEMTEVDAFNSSLASLIS 204 (241)
Q Consensus 154 gDL~~AasvLg~~~d~dWV~~~~~Af~klSss~eek~~~dtF~sSlasL~s 204 (241)
.+|+.++..+|+ |+++++..|+.+-..-++--..+.|.+.+..+..
T Consensus 23 erLPe~aRtlGk-----~irk~R~~~~~vk~El~~El~~~ELrk~l~~~~~ 68 (214)
T PRK04654 23 ERLPKAARFAGL-----WVRRARMQWDSVKQELERELEAEELKRSLQDVQA 68 (214)
T ss_pred hHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence 578999999995 9999999988886655544455555555555444
No 28
>PF08912 Rho_Binding: Rho Binding; InterPro: IPR015008 Rho is responsible for the recognition and binding of Rho binding domain-containing proteins (such as ROCK) to Rho, resulting in activation of the GTPase which in turn modulates the phosphorylation of various signalling proteins. This domain is within an amphipathic alpha-helical coiled-coil and interacts with Rho through predominantly hydrophobic interactions []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0000910 cytokinesis, 0006468 protein phosphorylation; PDB: 1UIX_A 1S1C_X.
Probab=23.44 E-value=2.2e+02 Score=22.00 Aligned_cols=17 Identities=29% Similarity=0.354 Sum_probs=13.2
Q ss_pred hhhhhhHHHHHHHHHhh
Q 026211 131 MKEKGYLQDLVYKLSKV 147 (241)
Q Consensus 131 ~~EtgyvQdaVYKLSKv 147 (241)
+.|.--=|-||+||+.+
T Consensus 48 ~~E~~LK~QAVNKLAEI 64 (69)
T PF08912_consen 48 NTERTLKQQAVNKLAEI 64 (69)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 46666678899999875
No 29
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=22.93 E-value=3.8e+02 Score=21.26 Aligned_cols=80 Identities=16% Similarity=0.265 Sum_probs=44.1
Q ss_pred HHHHHhhhhhhhcCChhHhHhhhcCCCCchHHHHHHHHhhhccCChhhhhhHHHHHhhHHHHHHhh-ccCchhhh-HHHH
Q 026211 141 VYKLSKVGEAIEKNDLAAASSVLGRSTETDWVQKANQAFTKLSSSPEEMTEVDAFNSSLASLISSV-TKNDIESS-KVAF 218 (241)
Q Consensus 141 VYKLSKvGqAIe~gDL~~AasvLg~~~d~dWV~~~~~Af~klSss~eek~~~dtF~sSlasL~ssv-~~gD~~ss-K~AF 218 (241)
|-++-.+|++++.||+...=..+... .|...+..-...| .+++..-+..+++.. .+=+.+.. +.-.
T Consensus 41 i~~i~~l~~~L~~~~~~~~~~~~~~~---~~~~~~~~~v~~~---------~~~iR~~i~~~i~~aY~sIs~~~la~~Lg 108 (143)
T PF10075_consen 41 IKAIWSLGQALWEGDYSKFWQALRSN---PWSPDYKPFVPGF---------EDTIRERIAHLISKAYSSISLSDLAEMLG 108 (143)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHS-TT-------HHHHTSTTH---------HHHHHHHHHHHHHHH-SEE-HHHHHHHTT
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHhc---cchHHHHHHHHHH---------HHHHHHHHHHHHHHHHhHcCHHHHHHHhC
Confidence 34566789999999999999988863 7999877766666 345555555444432 22222222 2223
Q ss_pred HhhhHHHHHHHHhhc
Q 026211 219 VASASAFEKWTSLTG 233 (241)
Q Consensus 219 VsSA~ALe~Was~tG 233 (241)
++ ...+++|+..-|
T Consensus 109 ~~-~~el~~~~~~~g 122 (143)
T PF10075_consen 109 LS-EEELEKFIKSRG 122 (143)
T ss_dssp S--HHHHHHHHHHHT
T ss_pred CC-HHHHHHHHHHcC
Confidence 33 667777766554
No 30
>PF02426 MIase: Muconolactone delta-isomerase; InterPro: IPR003464 This small enzyme forms a homodecameric complex, that catalyses the third step in the catabolism of catechol to succinate- and acetyl-coa in the beta-ketoadipate pathway (5.3.3.4 from EC). The protein has a ferredoxin-like fold according to SCOP.; GO: 0006725 cellular aromatic compound metabolic process
Probab=22.89 E-value=88 Score=24.78 Aligned_cols=30 Identities=17% Similarity=0.267 Sum_probs=20.4
Q ss_pred ccccChHHHHHHHHHHHHH---HHHHhhhhhhh
Q 026211 101 LEAEDDEELLEKVKKDRKK---RLEKQSALSSS 130 (241)
Q Consensus 101 LeaDDDEELLEKvK~dRkk---RLqkQ~vi~s~ 130 (241)
+|+|=|.+-.+++|+.-|+ .||+||.+...
T Consensus 11 ~P~~~~~~~~~~~~a~E~~~a~eLq~~G~~~~l 43 (91)
T PF02426_consen 11 VPPDMPPEEVDRLKAREKARAQELQRQGKWRHL 43 (91)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHCCeeeEE
Confidence 5777777777777766554 47888876543
No 31
>PF02413 Caudo_TAP: Caudovirales tail fibre assembly protein; InterPro: IPR003458 This family contains Bacteriophage T4 gp38 and related bacterial prophage and phage proteins. Gene 38 of phage T4 codes for a protein containing 183 amino acid residues with molecular weight of 22.3 kDa. Together with genes 36 and 37, whose products are structural proteins of the fibre distal part, gene 38 forms one transcription unit. Gp38, is a chaperone, which is required for assembly of the distal part of the long fibres and which is absent from the mature phage particle. In the absence of gp38 gp37, which is a component of the distal part of the long tail fibre, fails to oligomerise. The carboxy-terminal region of gp37 forms the tip of the distal fibre that interacts with the cell receptors. Functionally the role of gp38 can be replaced by pTfa of Bacteriophage lambda [, , ]. The function of many of the other members of this family remain to be elucidated.
Probab=21.13 E-value=1.6e+02 Score=23.62 Aligned_cols=30 Identities=27% Similarity=0.438 Sum_probs=21.3
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHH
Q 026211 106 DEELLEKVKKDRKKRLEKQSALSSSMKEKGYLQDLV 141 (241)
Q Consensus 106 DEELLEKvK~dRkkRLqkQ~vi~s~~~EtgyvQdaV 141 (241)
.+++++.+...|..||+. .......+||+|
T Consensus 60 ~~~~~~~A~~~k~~ll~~------A~~~I~~lqda~ 89 (130)
T PF02413_consen 60 KEELIAQAEAEKQRLLAE------ASEAIAPLQDAV 89 (130)
T ss_pred HHHHHHHHHHHHHHHHHH------HHHHHHHhHHHH
Confidence 688888888877777754 455556677765
No 32
>TIGR02863 spore_sspJ small, acid-soluble spore protein, SspJ family. RL J Bacteriol. 1998 Dec;180(24):6704-12.
Probab=20.46 E-value=81 Score=22.86 Aligned_cols=20 Identities=35% Similarity=0.275 Sum_probs=14.0
Q ss_pred hhhhhhhhhhhh--hHHHHHHH
Q 026211 124 QSALSSSMKEKG--YLQDLVYK 143 (241)
Q Consensus 124 Q~vi~s~~~Etg--yvQdaVYK 143 (241)
||.++...++.. +||+||.|
T Consensus 21 ~gaLEdAg~aLk~DPLQEAV~K 42 (47)
T TIGR02863 21 QGALEDAGQALKDDPLQEAVNK 42 (47)
T ss_pred HHHHHHHHHHhcCChHHHHHHH
Confidence 466777666543 88888877
Done!