Query psy1647
Match_columns 111
No_of_seqs 128 out of 916
Neff 6.8
Searched_HMMs 46136
Date Fri Aug 16 22:08:31 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1647.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1647hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3071|consensus 100.0 1.8E-33 4E-38 214.5 9.2 111 1-111 150-263 (274)
2 PF01151 ELO: GNS1/SUR4 family 100.0 5.3E-33 1.1E-37 209.5 9.4 110 1-111 129-247 (250)
3 PTZ00251 fatty acid elongase; 100.0 2.5E-30 5.4E-35 197.7 8.0 108 1-111 150-267 (272)
4 KOG3072|consensus 99.9 6.2E-24 1.3E-28 162.0 7.1 105 2-109 158-268 (282)
5 PRK00753 psbL photosystem II r 41.6 51 0.0011 18.1 3.0 25 79-103 14-38 (39)
6 CHL00038 psbL photosystem II p 37.0 74 0.0016 17.4 3.3 25 79-103 13-37 (38)
7 PF02419 PsbL: PsbL protein; 26.3 1.1E+02 0.0024 16.6 2.7 24 80-103 13-36 (37)
8 PF11119 DUF2633: Protein of u 23.7 92 0.002 18.7 2.3 15 88-102 12-26 (59)
9 PF12643 MazG-like: MazG-like 22.9 1.3E+02 0.0028 19.7 3.2 25 20-44 35-59 (98)
10 CHL00070 petB cytochrome b6 14.9 2.4E+02 0.0053 21.0 3.5 62 50-111 36-115 (215)
No 1
>KOG3071|consensus
Probab=100.00 E-value=1.8e-33 Score=214.55 Aligned_cols=111 Identities=44% Similarity=0.866 Sum_probs=103.9
Q ss_pred CeeEEeeeeeeeccCcchhHHHHHHHHHHHHHHHHHHHhcCCCcchhhhhhhHHHhHHHHHHHHHHhhhhee-ec-CCCC
Q psy1647 1 MVITTWAYLKFIKGEQTLFLGAINCFVHVAMYSYYFLSAFGPRVQKYLWWKNYITMLQIIQFILVLLQHVGL-IV-LDCK 78 (111)
Q Consensus 1 m~~~~w~~~~~~~~g~~~~~~~~Ns~VH~iMY~YY~l~a~g~~~~~~~~~k~~iT~~QivQF~~~~~~~~~~-~~-~~C~ 78 (111)
|++++|..+++.+||++.+.+.+|++||++||+||+++|+||+.++.+|||+++|.+|++||++..+|..+. ++ +||.
T Consensus 150 m~~~~~~~l~~~~~g~~~~~~~lNs~VHviMY~YYflsa~G~~v~~~lWWkky~t~vQlvqf~~~~~~~~~~~~~~~~c~ 229 (274)
T KOG3071|consen 150 MAFLSYLWLKFYGGGHGFFAILLNSFVHVIMYGYYFLSAFGPRVQWYLWWKKYITIVQLVQFLILFVHTLYVHLFKPGCC 229 (274)
T ss_pred HHHhhhheeEEeCCceeeeeeehhhhHHHHHHHHHHHHhhCcCccccchHHHHHHHHHHHHHHHHHHHHhheeeecCCCC
Confidence 678899999999999999999999999999999999999999999999999999999999999999999988 55 5899
Q ss_pred CChH-HHHHHHHHHHHHHHHHHHHhHhhhccCCC
Q psy1647 79 VDLK-ISYFIVGNAILFILLFGNFYYKTYIKKRK 111 (111)
Q Consensus 79 ~~~~-~~~~~~~~~~s~l~LF~~Fy~~~Y~~~~~ 111 (111)
.|++ +.+.+.+..++++.||.|||+|+|+|++|
T Consensus 230 ~~~~~~~~~~~~~~~~~l~LF~nFY~~tY~k~~~ 263 (274)
T KOG3071|consen 230 FGIGAWAFNGSVINVSFLLLFSNFYIKTYKKPKK 263 (274)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 9998 88888889999999999999999998653
No 2
>PF01151 ELO: GNS1/SUR4 family; InterPro: IPR002076 This group of eukaryotic integral membrane proteins are evolutionary related, but exact function has not yet clearly been established. The proteins have from 290 to 435 amino acid residues. Structurally, they seem to be formed of three sections: a N-terminal region with two transmembrane domains, a central hydrophilic loop and a C-terminal region that contains from one to three transmembrane domains. Members of this family are involved in long chain fatty acid elongation systems that produce the 26-carbon precursors for ceramide and sphingolipid synthesis []. Predicted to be integral membrane proteins, in eukaryotes they are probably located on the endoplasmic reticulum. Yeast ELO3 (P40319 from SWISSPROT) affects plasma membrane H+-ATPase activity, and may act on a glucose-signalling pathway that controls the expression of several genes that are transcriptionally regulated by glucose such as PMA1 []. ; GO: 0016021 integral to membrane
Probab=100.00 E-value=5.3e-33 Score=209.54 Aligned_cols=110 Identities=43% Similarity=0.756 Sum_probs=98.1
Q ss_pred CeeEEeeeeeeeccCcchhHHHHHHHHHHHHHHHHHHHhcCCCcchhhhhhhHHHhHHHHHHHHHHhhhheeecC-----
Q psy1647 1 MVITTWAYLKFIKGEQTLFLGAINCFVHVAMYSYYFLSAFGPRVQKYLWWKNYITMLQIIQFILVLLQHVGLIVL----- 75 (111)
Q Consensus 1 m~~~~w~~~~~~~~g~~~~~~~~Ns~VH~iMY~YY~l~a~g~~~~~~~~~k~~iT~~QivQF~~~~~~~~~~~~~----- 75 (111)
|++.+|..+++.++|+.++.+.+|++||++||+||+++|+|.| +.+.||||+||.+||+||+++++++.+....
T Consensus 129 ~~~~~w~~~~~~~~~~~~~~~~~N~~VH~iMY~YY~l~a~g~~-~~~~~~k~~IT~~Qi~QF~~~~~~~~~~~~~~~~~~ 207 (250)
T PF01151_consen 129 TLLYCWISYKYGPGGQIWFIAALNSFVHVIMYSYYFLSALGIR-KVPRWWKKYITSLQIVQFVIGIVHTVYALYYYFFPG 207 (250)
T ss_pred hhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHHHhcccc-cchhHHHHHHhHHhhhhhHHHHHHHHHHhheeccCC
Confidence 4678999999998899888899999999999999999999975 2336899999999999999999988877653
Q ss_pred -CC---CCChHHHHHHHHHHHHHHHHHHHHhHhhhccCCC
Q psy1647 76 -DC---KVDLKISYFIVGNAILFILLFGNFYYKTYIKKRK 111 (111)
Q Consensus 76 -~C---~~~~~~~~~~~~~~~s~l~LF~~Fy~~~Y~~~~~ 111 (111)
+| ++|.....++.++++++++||.|||+|+|.+|||
T Consensus 208 ~~C~~~~~~~~~~~~~~~~~~s~l~LF~~Fy~~~Y~~~~~ 247 (250)
T PF01151_consen 208 GDCDTSGYPKFNAILGLVYYVSYLYLFINFYIKSYIKKKK 247 (250)
T ss_pred CCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhCcCCC
Confidence 89 5558899999999999999999999999998774
No 3
>PTZ00251 fatty acid elongase; Provisional
Probab=99.96 E-value=2.5e-30 Score=197.65 Aligned_cols=108 Identities=29% Similarity=0.397 Sum_probs=88.0
Q ss_pred CeeEEeeeeeeeccCcchh-HHHHHHHHHHHHHHHHHHHhcCCCcchhhhhhhHHHhHHHHHHHHHHhhhheeec-----
Q psy1647 1 MVITTWAYLKFIKGEQTLF-LGAINCFVHVAMYSYYFLSAFGPRVQKYLWWKNYITMLQIIQFILVLLQHVGLIV----- 74 (111)
Q Consensus 1 m~~~~w~~~~~~~~g~~~~-~~~~Ns~VH~iMY~YY~l~a~g~~~~~~~~~k~~iT~~QivQF~~~~~~~~~~~~----- 74 (111)
|++.+|..+. +|++..+ ++.+|++||++||+||+++|+|+|. ...||||+||.+||+||+++++++.+.+.
T Consensus 150 ~~~~~w~~~~--~g~~~~~~~~~lNs~VH~iMY~YY~lsa~g~~~-~~~~~kk~IT~lQi~Qfv~~~~~~~~~~~~~~~~ 226 (272)
T PTZ00251 150 IFLYAWMSYQ--QGSSIWICAAAMNYFVHSIMYFYFALSEAGFKK-LVKPFAMYITLLQITQMVGGLFVSGYVIVQKLTK 226 (272)
T ss_pred HHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 3456777653 4454443 5899999999999999999999972 22359999999999999999998776653
Q ss_pred ---CCCCCCh-HHHHHHHHHHHHHHHHHHHHhHhhhccCCC
Q psy1647 75 ---LDCKVDL-KISYFIVGNAILFILLFGNFYYKTYIKKRK 111 (111)
Q Consensus 75 ---~~C~~~~-~~~~~~~~~~~s~l~LF~~Fy~~~Y~~~~~ 111 (111)
++|+.+. .....+.++++++++||.|||+|+|++|||
T Consensus 227 ~~~~~C~~~~~~~~~~~~~~~~s~l~LF~~Fy~~~Y~~~~~ 267 (272)
T PTZ00251 227 GDPKGCSGTTMATARGQLMIYIFNFYLFSEMFVKGYVLPRK 267 (272)
T ss_pred CCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC
Confidence 4799887 677777889999999999999999998764
No 4
>KOG3072|consensus
Probab=99.90 E-value=6.2e-24 Score=161.97 Aligned_cols=105 Identities=30% Similarity=0.432 Sum_probs=90.1
Q ss_pred eeEEeeeeeeeccCcchhHHHHHHHHHHHHHHHHHHHhcCCCcchhhhhhhHHHhHHHHHHHHHHhhhheeec----CC-
Q psy1647 2 VITTWAYLKFIKGEQTLFLGAINCFVHVAMYSYYFLSAFGPRVQKYLWWKNYITMLQIIQFILVLLQHVGLIV----LD- 76 (111)
Q Consensus 2 ~~~~w~~~~~~~~g~~~~~~~~Ns~VH~iMY~YY~l~a~g~~~~~~~~~k~~iT~~QivQF~~~~~~~~~~~~----~~- 76 (111)
++..|.++....+ .++|++.+|.+||++||+||+++|+|.|+|+ +.++.||.+||+||++++....-... .+
T Consensus 158 ~iy~~~~y~~~~a-~~rw~i~mNy~vHa~MY~YY~lrsl~ir~Pk--~vam~iTtlQi~Qm~i~~~i~~~v~~~~~~~~~ 234 (282)
T KOG3072|consen 158 LIYAWHSYIEKVA-WGRWFIWMNYLVHAFMYSYYALRSLGIRLPK--SVAMAITTLQIVQMVIGCYIGTHVYYVKHTHQL 234 (282)
T ss_pred eeeeeeecccCCc-CceEEEEEehhHHHHHHHHHHHHHcCCCCCh--HHHHHHHHHHHHHHHHHHheeeEEEEEEecCCe
Confidence 4567888876543 3469999999999999999999999999885 59999999999999999875543321 23
Q ss_pred -CCCChHHHHHHHHHHHHHHHHHHHHhHhhhccC
Q psy1647 77 -CKVDLKISYFIVGNAILFILLFGNFYYKTYIKK 109 (111)
Q Consensus 77 -C~~~~~~~~~~~~~~~s~l~LF~~Fy~~~Y~~~ 109 (111)
|+.+..+..++.+++++|++||.|||.++|+++
T Consensus 235 ~c~~s~~~~~l~~~my~syfvLf~~Ff~~aYi~~ 268 (282)
T KOG3072|consen 235 LCQQSYKNLSLCFLMYISYFVLFANFFYQAYIKK 268 (282)
T ss_pred eeeeeccchhhHHHHHHHHHHHHHHHHHHHHhhh
Confidence 999999999999999999999999999999986
No 5
>PRK00753 psbL photosystem II reaction center L; Provisional
Probab=41.60 E-value=51 Score=18.08 Aligned_cols=25 Identities=12% Similarity=0.381 Sum_probs=20.6
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHhH
Q psy1647 79 VDLKISYFIVGNAILFILLFGNFYY 103 (111)
Q Consensus 79 ~~~~~~~~~~~~~~s~l~LF~~Fy~ 103 (111)
-.+..+++++.......+||.++|-
T Consensus 14 LNRTSLy~GlLlifvl~vLFssYff 38 (39)
T PRK00753 14 LNRTSLYLGLLLVFVLGILFSSYFF 38 (39)
T ss_pred echhhHHHHHHHHHHHHHHHHhhcc
Confidence 3567888999988999999998764
No 6
>CHL00038 psbL photosystem II protein L
Probab=37.02 E-value=74 Score=17.38 Aligned_cols=25 Identities=16% Similarity=0.465 Sum_probs=20.5
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHhH
Q psy1647 79 VDLKISYFIVGNAILFILLFGNFYY 103 (111)
Q Consensus 79 ~~~~~~~~~~~~~~s~l~LF~~Fy~ 103 (111)
-.+..+++++.......+||.++|-
T Consensus 13 LNRTSLy~GLLlifvl~vlfssyff 37 (38)
T CHL00038 13 LNRTSLYWGLLLIFVLAVLFSNYFF 37 (38)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHhc
Confidence 3567888999888899999998774
No 7
>PF02419 PsbL: PsbL protein; InterPro: IPR003372 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 []. This family represents the low molecular weight transmembrane protein PsbL found in PSII. PsbL is located in a gene cluster with PsbE, PsbF and PsbJ (PsbEFJL). Both PsbL and PsbJ (IPR002682 from INTERPRO) are essential for proper assembly of the OEC. Mutations in PsbL prevent the formation of both PSII core dimers and PSII-light harvesting complex []. In addition, both PsbL and PsbJ are involved in the unidirectional flow of electrons, where PsbJ regulates the forward electron flow from D2 (Qa) to the plastoquinone pool, and PsbL prevents the reduction of PSII by back electron flow from plastoquinol protecting PSII from photo-inactivation [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_L 3A0B_l 3ARC_l 1S5L_l 2AXT_l 3BZ2_L 4FBY_L 3PRQ_L 3PRR_L 3KZI_L ....
Probab=26.26 E-value=1.1e+02 Score=16.64 Aligned_cols=24 Identities=13% Similarity=0.419 Sum_probs=18.5
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHhH
Q psy1647 80 DLKISYFIVGNAILFILLFGNFYY 103 (111)
Q Consensus 80 ~~~~~~~~~~~~~s~l~LF~~Fy~ 103 (111)
.+..+++++......-+||.+++-
T Consensus 13 NRTSLY~GLllifvl~vLFssyff 36 (37)
T PF02419_consen 13 NRTSLYWGLLLIFVLAVLFSSYFF 36 (37)
T ss_dssp -CCHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHhHHHHHHHHHHHHHHhhhhhc
Confidence 355678888888888999998774
No 8
>PF11119 DUF2633: Protein of unknown function (DUF2633); InterPro: IPR022576 This family is conserved largely in Proteobacteria. Several members are named as YfgG. The function is not known.
Probab=23.71 E-value=92 Score=18.74 Aligned_cols=15 Identities=40% Similarity=0.678 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHh
Q psy1647 88 VGNAILFILLFGNFY 102 (111)
Q Consensus 88 ~~~~~s~l~LF~~Fy 102 (111)
++..+|+++||+.+=
T Consensus 12 iVLLISfiIlfgRl~ 26 (59)
T PF11119_consen 12 IVLLISFIILFGRLI 26 (59)
T ss_pred HHHHHHHHHHHHHHH
Confidence 345688888988653
No 9
>PF12643 MazG-like: MazG-like family
Probab=22.92 E-value=1.3e+02 Score=19.65 Aligned_cols=25 Identities=16% Similarity=0.319 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCc
Q psy1647 20 LGAINCFVHVAMYSYYFLSAFGPRV 44 (111)
Q Consensus 20 ~~~~Ns~VH~iMY~YY~l~a~g~~~ 44 (111)
-.+.+...++++|+|-....+|...
T Consensus 35 e~i~deLAdvii~~ylLa~rLGid~ 59 (98)
T PF12643_consen 35 EAIKDELADVIIYCYLLADRLGIDF 59 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCH
Confidence 4788999999999999999999983
No 10
>CHL00070 petB cytochrome b6
Probab=14.88 E-value=2.4e+02 Score=20.99 Aligned_cols=62 Identities=8% Similarity=0.025 Sum_probs=36.7
Q ss_pred hhhHHHhHHHHHHHHHHhhhheeec-----------CCCCCChHHHH-------HHHHHHHHHHHHHHHHhHhhhccCCC
Q psy1647 50 WKNYITMLQIIQFILVLLQHVGLIV-----------LDCKVDLKISY-------FIVGNAILFILLFGNFYYKTYIKKRK 111 (111)
Q Consensus 50 ~k~~iT~~QivQF~~~~~~~~~~~~-----------~~C~~~~~~~~-------~~~~~~~s~l~LF~~Fy~~~Y~~~~~ 111 (111)
+-..+..+=++|.+.|+..+.+.-- ..=+.+.++.. .++...+.++=++..+|..+|.++|+
T Consensus 36 ~G~ll~~~~~iqiiTGi~L~~~Y~p~~~~Af~Sv~~I~~ev~~Gwl~R~~H~~gas~~~~~~~lH~~r~~~~gsYk~pre 115 (215)
T CHL00070 36 LGGITLTCFLVQVATGFAMTFYYRPTVTEAFASVQYIMTEVNFGWLIRSVHRWSASMMVLMMILHVFRVYLTGGFKKPRE 115 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCcc
Confidence 3466678888999998876543310 00122322211 23333455666888999999998764
Done!