Query 030984
Match_columns 168
No_of_seqs 26 out of 28
Neff 1.8
Searched_HMMs 46136
Date Fri Mar 29 07:31:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030984.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030984hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00054 photosystem I reactio 100.0 3.6E-72 7.8E-77 440.6 8.6 133 34-168 1-138 (139)
2 PF05479 PsaN: Photosystem I r 100.0 2.4E-70 5.3E-75 429.8 -1.6 128 38-168 8-138 (138)
3 PLN00078 photosystem I reactio 92.4 0.11 2.3E-06 41.3 2.5 50 54-107 29-82 (122)
4 PF05757 PsbQ: Oxygen evolving 53.9 4.4 9.5E-05 33.8 0.1 25 42-70 16-40 (202)
5 TIGR03044 PS_II_psb27 photosys 37.9 55 0.0012 26.4 4.0 39 64-105 12-50 (135)
6 PF03002 Somatostatin: Somatos 37.7 12 0.00027 21.5 0.2 6 162-167 8-13 (18)
7 PLN00064 photosystem II protei 37.0 66 0.0014 27.0 4.4 48 56-104 31-78 (166)
8 PF01160 Opiods_neuropep: Vert 31.6 20 0.00043 24.1 0.5 10 148-157 25-34 (48)
9 PF14285 DUF4367: Domain of un 31.1 49 0.0011 23.9 2.5 17 60-76 2-18 (168)
10 PF12318 FAD-SLDH: Membrane bo 30.1 74 0.0016 25.3 3.6 21 84-104 34-54 (168)
11 PF12071 DUF3551: Protein of u 25.7 75 0.0016 23.1 2.7 26 61-86 2-27 (82)
12 PLN00092 photosystem I reactio 25.4 49 0.0011 27.0 1.8 8 40-47 33-40 (137)
13 PRK09133 hypothetical protein; 24.9 63 0.0014 27.9 2.5 32 66-97 13-44 (472)
14 KOG3381 Uncharacterized conser 24.6 28 0.00061 29.0 0.3 16 96-111 131-146 (161)
15 PF03962 Mnd1: Mnd1 family; I 24.1 29 0.00063 27.9 0.3 20 144-168 39-59 (188)
16 TIGR02811 formate_TAT formate 23.2 1.3E+02 0.0029 21.0 3.5 14 57-70 7-20 (66)
17 PF07172 GRP: Glycine rich pro 22.7 35 0.00076 25.3 0.5 7 97-103 38-44 (95)
18 PF10399 UCR_Fe-S_N: Ubiquitin 22.2 1.1E+02 0.0023 20.0 2.6 18 57-74 7-24 (41)
19 PF11853 DUF3373: Protein of u 22.2 97 0.0021 29.3 3.3 41 62-102 3-46 (489)
20 TIGR02001 gcw_chp conserved hy 21.8 25 0.00054 29.4 -0.5 32 82-113 34-65 (243)
21 PLN00058 photosystem II reacti 21.7 90 0.002 24.5 2.6 20 56-75 46-65 (103)
22 PLN00042 photosystem II oxygen 21.6 1.2E+02 0.0026 26.8 3.6 26 59-87 50-75 (260)
No 1
>PLN00054 photosystem I reaction center subunit N; Provisional
Probab=100.00 E-value=3.6e-72 Score=440.59 Aligned_cols=133 Identities=72% Similarity=1.080 Sum_probs=127.9
Q ss_pred CccccCCccceeeeeccc--cccccCcchhHHHHHHHHHHHHHHhhhhccccccccchHHHHHHh---hhhhhhhhhhcc
Q 030984 34 PAVHGHKMPVIRAQQVDV--SKESRGTDGRRAAMALLAVTLFTTATAAASSSANAGVIDEYLERS---KELNDQKRLATS 108 (168)
Q Consensus 34 p~~~~~klPvira~~~~~--~~~~~~~~grraAl~~laa~l~~ta~~a~a~sAnAgv~~d~l~kS---KeLNDKKRlATS 108 (168)
+.+++.++|+|++|++.. +..+++++|||+||++|||+||+++ +++++||||||+|||||| ||||||||||||
T Consensus 1 ~~~s~~~~~~ika~r~~~A~~~~~~~~~grraa~~~Laa~l~~~a--a~~~~AnAgv~~d~L~kS~aNKeLNDKKRlATS 78 (139)
T PLN00054 1 GAVSQMKMPVIKAQRVVRATGAVVDASDGRRAALVGLAATLFSTA--AAAASANAGVISDLLAKSKANKELNDKKRLATS 78 (139)
T ss_pred CccccccccccccccccccccchhccccchHHHHHHHHHHHHHHH--hcccccchhHHHHHHHHhhhhhhhhhHHhhhhc
Confidence 356788999999999884 7778899999999999999999988 899999999999999999 999999999999
Q ss_pred ccccceeeeeeeccccCCCCccchhhhhhcCCCcccccCcceeecccccccccCcceecC
Q 030984 109 GANFARAYTVQFGTCKFPENFTGCQDLAKQKKVPFISDDLELECKGKDKYKCGSNVFWKW 168 (168)
Q Consensus 109 ~ANfaRa~TV~~GtCkFP~Nf~GCqdlAk~k~V~FlsdDl~lECeGkdk~kCgSnvfwkw 168 (168)
||||+|+||||||+|+||||||||||||+||+||||||||+|||||+|+|+||||+||||
T Consensus 79 ~ANfaRa~TV~~G~C~FP~Nf~GCqdlA~~k~V~flsdDl~iECEGkd~~~CgS~~~~~~ 138 (139)
T PLN00054 79 GANFARSRTVQDGTCKFPENFTGCEDLAKQKKVPFISEDLALECEGKDKKKCGSKVFWKW 138 (139)
T ss_pred chhhhhheeeecccccCCcccccHHHHHhcCCCCccccccceeecCCccceecccccccC
Confidence 999999999999999999999999999999999999999999999999999999999999
No 2
>PF05479 PsaN: Photosystem I reaction centre subunit N (PSAN or PSI-N); InterPro: IPR008796 This family contains several Photosystem I reaction centre subunit N (PSI-N) proteins. The protein has no known function although it is localised in the thylakoid lumen []. PSI-N is a small extrinsic subunit at the lumen side and is very likely involved in the docking of plastocyanin.; GO: 0005516 calmodulin binding, 0015979 photosynthesis, 0009522 photosystem I, 0042651 thylakoid membrane; PDB: 2WSE_N 2WSC_N 2WSF_N 2O01_N.
Probab=100.00 E-value=2.4e-70 Score=429.85 Aligned_cols=128 Identities=73% Similarity=1.146 Sum_probs=65.9
Q ss_pred cCCccceeeeeccccccccCcchhHHHHHHHHHHHHHHhhhhccccccccchHHHHHHh---hhhhhhhhhhccccccce
Q 030984 38 GHKMPVIRAQQVDVSKESRGTDGRRAAMALLAVTLFTTATAAASSSANAGVIDEYLERS---KELNDQKRLATSGANFAR 114 (168)
Q Consensus 38 ~~klPvira~~~~~~~~~~~~~grraAl~~laa~l~~ta~~a~a~sAnAgv~~d~l~kS---KeLNDKKRlATS~ANfaR 114 (168)
..++|+|++++.. ....+++++||+++++|+++|++|| +++++||||||+|||+|| |||||||||+||||||+|
T Consensus 8 sa~~qai~~~ka~-~~~~~~~~~~Raall~Laa~l~~tA--a~a~~A~A~l~~dyL~KSkaNKelNDKkRlaTs~aNfaR 84 (138)
T PF05479_consen 8 SAKVQAIRAAKAK-RVVVRASDGRRAALLGLAAVLAATA--ASASSARAGLLEDYLEKSKANKELNDKKRLATSYANFAR 84 (138)
T ss_dssp ---------------------------------------------------SSSSS-SSHSSSSSTTTSS-TSSSSSSTS
T ss_pred hcccchhhhccCC-CcccccCccchHHHHHHHHHHHHHh--hcCcchhhHHHHHHHHHhHhhhhhhhHHHhhhhhhhhhh
Confidence 3488999999777 4466778999999999999999887 778999999999999999 999999999999999999
Q ss_pred eeeeeeccccCCCCccchhhhhhcCCCcccccCcceeecccccccccCcceecC
Q 030984 115 AYTVQFGTCKFPENFTGCQDLAKQKKVPFISDDLELECKGKDKYKCGSNVFWKW 168 (168)
Q Consensus 115 a~TV~~GtCkFP~Nf~GCqdlAk~k~V~FlsdDl~lECeGkdk~kCgSnvfwkw 168 (168)
+|||+||+|+||+|||||||||+||+||||||||+|||||||+|||||||||||
T Consensus 85 ~~tv~fg~c~fP~n~~gc~~la~~~~v~f~sdd~~lecegkd~~kc~s~~~~k~ 138 (138)
T PF05479_consen 85 AYTVQFGTCKFPENFTGCQDLAKQKKVPFLSDDLKLECEGKDKYKCGSNVFWKW 138 (138)
T ss_dssp GTT--TSTSSSSS-SSSSSSS-STT-TTSS--SSSSS-TTTSSS-SSSS-SS--
T ss_pred heeeecccccCCccchhhHHHHHcCCCceecccceeeecCccccccccceeecC
Confidence 999999999999999999999999999999999999999999999999999999
No 3
>PLN00078 photosystem I reaction center subunit N (PsaN); Provisional
Probab=92.37 E-value=0.11 Score=41.32 Aligned_cols=50 Identities=36% Similarity=0.542 Sum_probs=33.7
Q ss_pred cccCcchhHHHHHHHHHHHHHHhhh-hccccccccchHHHHHHh---hhhhhhhhhhc
Q 030984 54 ESRGTDGRRAAMALLAVTLFTTATA-AASSSANAGVIDEYLERS---KELNDQKRLAT 107 (168)
Q Consensus 54 ~~~~~~grraAl~~laa~l~~ta~~-a~a~sAnAgv~~d~l~kS---KeLNDKKRlAT 107 (168)
..++.-.||-.|..|.. ||+. -.++..+-.+|+.||.|| |+-|||.||=.
T Consensus 29 a~rng~srr~llt~l~s----taaip~~~~~Sr~~liq~llkkSeeNKakndkERLDd 82 (122)
T PLN00078 29 AQRNGISRRCLLTFLTS----TAAIPEAGSESRKALLQEYLKKSEENKEKNDKERLDD 82 (122)
T ss_pred HHhcchhHHHHHHHHHh----hccCCCCcCchHHHHHHHHHHHhHHhHHHhHHHHHHH
Confidence 33555678876655433 2211 134455668999999999 99999999953
No 4
>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=53.91 E-value=4.4 Score=33.82 Aligned_cols=25 Identities=32% Similarity=0.432 Sum_probs=0.0
Q ss_pred cceeeeeccccccccCcchhHHHHHHHHH
Q 030984 42 PVIRAQQVDVSKESRGTDGRRAAMALLAV 70 (168)
Q Consensus 42 Pvira~~~~~~~~~~~~~grraAl~~laa 70 (168)
+++|++| ........||++|.+|+|
T Consensus 16 ~~vra~~----~~~~~~~~RRa~l~~l~a 40 (202)
T PF05757_consen 16 VVVRASQ----SPAQQQTSRRAVLGSLLA 40 (202)
T ss_dssp -----------------------------
T ss_pred ceecccc----CcccccccHHHHHHHHHH
Confidence 5678776 223345689998874444
No 5
>TIGR03044 PS_II_psb27 photosystem II protein Psb27. Members of this family are the Psb27 protein of the cyanobacterial photosynthetic supracomplex, photosystem II. Although most protein components of both cyanobacterial and chloroplast versions of photosystem II are closely related and described together by single model families, this family is strictly bacterial. Some uncharacterized proteins with highly divergent sequences, from Arabidopsis, score between trusted and noise cutoffs for this model but are not at this time assigned as functionally equivalent photosystem II proteins.
Probab=37.93 E-value=55 Score=26.42 Aligned_cols=39 Identities=23% Similarity=0.319 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHhhhhccccccccchHHHHHHhhhhhhhhhh
Q 030984 64 AMALLAVTLFTTATAAASSSANAGVIDEYLERSKELNDQKRL 105 (168)
Q Consensus 64 Al~~laa~l~~ta~~a~a~sAnAgv~~d~l~kSKeLNDKKRl 105 (168)
..+.|.++|+.+ +.+.+++.|++.+|.+-+-++=++=|-
T Consensus 12 lal~L~~~l~l~---~c~~~~~~~Ltg~Y~~DT~~Vi~tlr~ 50 (135)
T TIGR03044 12 LALVLGLCLLLT---ACSGAAKTRLTGDYVEDTLAVIQTLRE 50 (135)
T ss_pred HHHHHHHHHHHh---cccCCCcccccchHHHHHHHHHHHHHH
Confidence 455566666666 344467899999999988555544443
No 6
>PF03002 Somatostatin: Somatostatin/Cortistatin family; InterPro: IPR018142 Somatostatin inhibits the release of the pituitary growth hormone, somatotropin and inhibits the release of glucagon and insulin from the pancreas of fasted animals. Cortistatin is a cortical neuropeptide with neuronal depressant and sleep-modulating properties [].; GO: 0005179 hormone activity, 0005576 extracellular region
Probab=37.72 E-value=12 Score=21.48 Aligned_cols=6 Identities=67% Similarity=1.575 Sum_probs=5.0
Q ss_pred Ccceec
Q 030984 162 SNVFWK 167 (168)
Q Consensus 162 Snvfwk 167 (168)
-|+|||
T Consensus 8 knffWK 13 (18)
T PF03002_consen 8 KNFFWK 13 (18)
T ss_pred cceeec
Confidence 489998
No 7
>PLN00064 photosystem II protein Psb27; Provisional
Probab=36.98 E-value=66 Score=26.96 Aligned_cols=48 Identities=25% Similarity=0.285 Sum_probs=29.1
Q ss_pred cCcchhHHHHHHHHHHHHHHhhhhccccccccchHHHHHHhhhhhhhhh
Q 030984 56 RGTDGRRAAMALLAVTLFTTATAAASSSANAGVIDEYLERSKELNDQKR 104 (168)
Q Consensus 56 ~~~~grraAl~~laa~l~~ta~~a~a~sAnAgv~~d~l~kSKeLNDKKR 104 (168)
+....||..+.+.++++. ++.+.+..+|.|.-..||.+...++=++-|
T Consensus 31 ~~~~~rr~~~~~~~~~~~-~~~~~~~~~a~a~~~g~Y~~DT~aVi~~lr 78 (166)
T PLN00064 31 RNHLLRREFLSLATTILT-SAALLPVAPAFAASDEEYVKETKDVIGKVR 78 (166)
T ss_pred hhhhHHHHHHHHHHHHHH-HHHhccCcchhhccCCChHHHHHHHHHHHH
Confidence 344578888875555443 444555666777777777776644444433
No 8
>PF01160 Opiods_neuropep: Vertebrate endogenous opioids neuropeptide; InterPro: IPR006024 Vertebrate endogenous opioid neuropeptides are released by post-translational proteolytic cleavage of precursor proteins. The precursors consist of the following components: a signal sequence that precedes a conserved region of about 50 residues; a variable-length region; and the sequence of the neuropeptide itself. Three types of precursor are known: preproenkephalin A (gene PENK), which is processed to produce 6 copies of Met-enkephalin, plus Leu-enkephalin; preproenkephalin B (gene PDYN), which is processed to produce neoendorphin, dynorphin, leumorphin, rimorphin and Leu-enkephalin; and prepronocipeptin (gene PNOC), whose processing produces nociceptin (orphanin FQ) and two other potential neuropeptides. Sequence analysis reveals that the conserved N-terminal region of the precursors contains 6 cysteines, which are probably involved in disulphide bond formation. It is speculated that this region might be important for neuropeptide processing [].; GO: 0007218 neuropeptide signaling pathway
Probab=31.61 E-value=20 Score=24.11 Aligned_cols=10 Identities=50% Similarity=0.820 Sum_probs=7.6
Q ss_pred cceeeccccc
Q 030984 148 LELECKGKDK 157 (168)
Q Consensus 148 l~lECeGkdk 157 (168)
=-|||||+-.
T Consensus 25 C~LECEg~l~ 34 (48)
T PF01160_consen 25 CTLECEGKLS 34 (48)
T ss_pred heeeeCCCCC
Confidence 4689999854
No 9
>PF14285 DUF4367: Domain of unknown function (DUF4367)
Probab=31.12 E-value=49 Score=23.92 Aligned_cols=17 Identities=41% Similarity=0.452 Sum_probs=10.0
Q ss_pred hhHHHHHHHHHHHHHHh
Q 030984 60 GRRAAMALLAVTLFTTA 76 (168)
Q Consensus 60 grraAl~~laa~l~~ta 76 (168)
.||+|++.+|+.+++.+
T Consensus 2 ~~r~a~~~~a~~i~~~~ 18 (168)
T PF14285_consen 2 RKRAAVAAAAVIILVFA 18 (168)
T ss_pred hHHHHHHHHHHHHHHHh
Confidence 36676666666555444
No 10
>PF12318 FAD-SLDH: Membrane bound FAD containing D-sorbitol dehydrogenase ; InterPro: IPR024651 There are two types of membrane-bound D-sorbitol dehydrogenase: PQQ-SLDH (pyrroloquinoline quinone sorbitol dehydrogenase) and FAD-SLDH (FAD-containing sorbitol dehydrogenase). FAD-SLDH is involved in oxidation of D-sorbitol to L-sorbose and consists of a large, small and cytochrome c subunits []. This entry represents the small subunit of the FAD-containing D-sorbitol dehydrogenase. This family of proteins is found in bacteria and contains a conserved ALM sequence motif. The role of the small subunit is unknown. Gluconate dehydrogenases and fructose dehydrogenases are also included in this entry.
Probab=30.13 E-value=74 Score=25.26 Aligned_cols=21 Identities=19% Similarity=0.400 Sum_probs=15.5
Q ss_pred ccccchHHHHHHhhhhhhhhh
Q 030984 84 ANAGVIDEYLERSKELNDQKR 104 (168)
Q Consensus 84 AnAgv~~d~l~kSKeLNDKKR 104 (168)
+...-++++|.-|..|-+++.
T Consensus 34 ~~~~~~~~Fm~lS~~LTg~~~ 54 (168)
T PF12318_consen 34 ASSADLDDFMALSQLLTGRDD 54 (168)
T ss_pred CCcccHHHHHHHHHHHhCCcc
Confidence 345557899999988887553
No 11
>PF12071 DUF3551: Protein of unknown function (DUF3551); InterPro: IPR021937 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 79 to 104 amino acids in length. This protein has a single completely conserved residue C that may be functionally important.
Probab=25.68 E-value=75 Score=23.11 Aligned_cols=26 Identities=38% Similarity=0.386 Sum_probs=11.4
Q ss_pred hHHHHHHHHHHHHHHhhhhccccccc
Q 030984 61 RRAAMALLAVTLFTTATAAASSSANA 86 (168)
Q Consensus 61 rraAl~~laa~l~~ta~~a~a~sAnA 86 (168)
|+.+++.+++.+..+..+..+++|.|
T Consensus 2 R~~~~aa~a~~~~~~~~~~~~~pA~A 27 (82)
T PF12071_consen 2 RRLLLAALALLLAAALLALAAAPAQA 27 (82)
T ss_pred hhHHHHHHHHHHHHHHHhccccchhh
Confidence 44455544442222333344555554
No 12
>PLN00092 photosystem I reaction center subunit V (PsaG); Provisional
Probab=25.38 E-value=49 Score=27.04 Aligned_cols=8 Identities=13% Similarity=0.517 Sum_probs=5.7
Q ss_pred Cccceeee
Q 030984 40 KMPVIRAQ 47 (168)
Q Consensus 40 klPvira~ 47 (168)
-||.++..
T Consensus 33 GLPam~~~ 40 (137)
T PLN00092 33 GLPAMAKK 40 (137)
T ss_pred CCchhccc
Confidence 56888755
No 13
>PRK09133 hypothetical protein; Provisional
Probab=24.93 E-value=63 Score=27.86 Aligned_cols=32 Identities=34% Similarity=0.213 Sum_probs=15.9
Q ss_pred HHHHHHHHHHhhhhccccccccchHHHHHHhh
Q 030984 66 ALLAVTLFTTATAAASSSANAGVIDEYLERSK 97 (168)
Q Consensus 66 ~~laa~l~~ta~~a~a~sAnAgv~~d~l~kSK 97 (168)
.+|+++..+.++++.++.+.+.--+++++.-+
T Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 44 (472)
T PRK09133 13 ALLAAAAATGAAAAAAPAAPTADQQAARDLYK 44 (472)
T ss_pred HHhhccchhhhhhhcCCCCcchhHHHHHHHHH
Confidence 34444444444445555555555555555443
No 14
>KOG3381 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.57 E-value=28 Score=29.01 Aligned_cols=16 Identities=44% Similarity=0.646 Sum_probs=12.6
Q ss_pred hhhhhhhhhhhccccc
Q 030984 96 SKELNDQKRLATSGAN 111 (168)
Q Consensus 96 SKeLNDKKRlATS~AN 111 (168)
.|.||||.|.|..--|
T Consensus 131 NKQLnDKERVaAA~EN 146 (161)
T KOG3381|consen 131 NKQLNDKERVAAALEN 146 (161)
T ss_pred HhhhccHHHHHHHhcC
Confidence 4999999999875443
No 15
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=24.11 E-value=29 Score=27.95 Aligned_cols=20 Identities=35% Similarity=0.733 Sum_probs=12.9
Q ss_pred cccCcceeeccccccccc-CcceecC
Q 030984 144 ISDDLELECKGKDKYKCG-SNVFWKW 168 (168)
Q Consensus 144 lsdDl~lECeGkdk~kCg-Snvfwkw 168 (168)
|-||=-|.|| ||| ||+||-+
T Consensus 39 LvDDglV~~E-----KiGssn~YWsF 59 (188)
T PF03962_consen 39 LVDDGLVHVE-----KIGSSNYYWSF 59 (188)
T ss_pred Hhccccchhh-----hccCeeEEEec
Confidence 4455555554 787 5999964
No 16
>TIGR02811 formate_TAT formate dehydrogenase region TAT target. Members of this uncharacterized protein family are all small, extending 70 or fewer residues from their respective likely start codons. All have the twin-arginine-dependent tranport (TAT) signal sequence at the N-terminus and a conserved 20-residue C-terminal region that includes the motif Y-[HRK]-X-[TS]-X-H-[IV]-X-X-[YF]-Y. The TAT signal sequence suggests a bound cofactor. All members are encoded near genes for subunits of formate dehydrogenase, and may themselves be a subunit or accessory protein.
Probab=23.21 E-value=1.3e+02 Score=20.95 Aligned_cols=14 Identities=29% Similarity=0.335 Sum_probs=9.4
Q ss_pred CcchhHHHHHHHHH
Q 030984 57 GTDGRRAAMALLAV 70 (168)
Q Consensus 57 ~~~grraAl~~laa 70 (168)
.+-+||..|-+++.
T Consensus 7 ~~~sRR~Flk~lg~ 20 (66)
T TIGR02811 7 ADPSRRDLLKGLGV 20 (66)
T ss_pred CCccHHHHHHHHHH
Confidence 34589988875554
No 17
>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=22.68 E-value=35 Score=25.26 Aligned_cols=7 Identities=43% Similarity=0.748 Sum_probs=3.4
Q ss_pred hhhhhhh
Q 030984 97 KELNDQK 103 (168)
Q Consensus 97 KeLNDKK 103 (168)
++.+|.|
T Consensus 38 ~~v~~~~ 44 (95)
T PF07172_consen 38 NEVQDDK 44 (95)
T ss_pred CCCCccc
Confidence 4555544
No 18
>PF10399 UCR_Fe-S_N: Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; InterPro: IPR019470 This entry represents the TAT-signal region found in the iron-sulphur subunit of Ubiquinol-cytochrome C reductase (also known as the cytochrome bc1 complex). This enzymex is an oligomeric membrane protein complex that is a component of respiratory and photosynthetic electron transfer chains. It couples the transfer of electrons from ubiquinol to cytochrome c with the generation of a protein gradient across the membrane []. This entry is associated with IPR017941 from INTERPRO, IPR004192 from INTERPRO and IPR015248 from INTERPRO. ; GO: 0008121 ubiquinol-cytochrome-c reductase activity, 0055114 oxidation-reduction process; PDB: 1ZRT_R 2QJY_R 2FYN_L 2QJK_O 2QJP_I 2YIU_F.
Probab=22.22 E-value=1.1e+02 Score=19.95 Aligned_cols=18 Identities=11% Similarity=0.078 Sum_probs=8.9
Q ss_pred CcchhHHHHHHHHHHHHH
Q 030984 57 GTDGRRAAMALLAVTLFT 74 (168)
Q Consensus 57 ~~~grraAl~~laa~l~~ 74 (168)
...+||..|.....++..
T Consensus 7 ~~~~RRdFL~~at~~~ga 24 (41)
T PF10399_consen 7 VDPTRRDFLTIATSAVGA 24 (41)
T ss_dssp ---HHHHHHHHHHHHHHH
T ss_pred CCchHHHHHHHHHHHHHH
Confidence 345788777555444443
No 19
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=22.20 E-value=97 Score=29.33 Aligned_cols=41 Identities=22% Similarity=0.258 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHhhhhccccccccc---hHHHHHHhhhhhhh
Q 030984 62 RAAMALLAVTLFTTATAAASSSANAGV---IDEYLERSKELNDQ 102 (168)
Q Consensus 62 raAl~~laa~l~~ta~~a~a~sAnAgv---~~d~l~kSKeLNDK 102 (168)
+...+.|+++|+++...+.+..+...+ ||+|-.+-.||..+
T Consensus 3 k~~~l~l~aall~~s~~~~a~~~~~~~~qkie~L~kql~~Lk~q 46 (489)
T PF11853_consen 3 KLISLSLAAALLFLSLPAAAMADDIDLLQKIEALKKQLEELKAQ 46 (489)
T ss_pred hhHHHHHHHHHHHhccchhhhhhhhHHHHHHHHHHHHHHHHHHh
Confidence 334444555443333223333344444 66655554444433
No 20
>TIGR02001 gcw_chp conserved hypothetical protein, proteobacterial. This model represents a conserved hypothetical protein about 240 residues in length found so far in Proteobacteria including Shewanella oneidensis, Ralstonia solanacearum, and Colwellia psychrerythraea, usually as part of a paralogous family. The function is unknown.
Probab=21.76 E-value=25 Score=29.39 Aligned_cols=32 Identities=16% Similarity=0.328 Sum_probs=21.1
Q ss_pred ccccccchHHHHHHhhhhhhhhhhhccccccc
Q 030984 82 SSANAGVIDEYLERSKELNDQKRLATSGANFA 113 (168)
Q Consensus 82 ~sAnAgv~~d~l~kSKeLNDKKRlATS~ANfa 113 (168)
.+.+.++++||+-|--.+.|.+=.+.-+..+.
T Consensus 34 ~s~~~~~~SdY~~RGisqt~~~pavQg~~~~~ 65 (243)
T TIGR02001 34 VSGNVTLTSDYVFRGVSQTNSDPAIQGGLDYS 65 (243)
T ss_pred EEEEEEEEEeeEEeCcccCCCCcEEEeEEEEE
Confidence 36788999999988755555554444444443
No 21
>PLN00058 photosystem II reaction center subunit T; Provisional
Probab=21.70 E-value=90 Score=24.51 Aligned_cols=20 Identities=25% Similarity=0.190 Sum_probs=14.6
Q ss_pred cCcchhHHHHHHHHHHHHHH
Q 030984 56 RGTDGRRAAMALLAVTLFTT 75 (168)
Q Consensus 56 ~~~~grraAl~~laa~l~~t 75 (168)
.+++|||..++..||+...+
T Consensus 46 e~~~gRR~~mfaaaAaav~s 65 (103)
T PLN00058 46 QSTTMRRDLMFTAAAAAVCS 65 (103)
T ss_pred cchhhHHHHHHHHHHHHHHh
Confidence 56789999998877754433
No 22
>PLN00042 photosystem II oxygen-evolving enhancer protein 2; Provisional
Probab=21.62 E-value=1.2e+02 Score=26.75 Aligned_cols=26 Identities=50% Similarity=0.428 Sum_probs=15.6
Q ss_pred chhHHHHHHHHHHHHHHhhhhcccccccc
Q 030984 59 DGRRAAMALLAVTLFTTATAAASSSANAG 87 (168)
Q Consensus 59 ~grraAl~~laa~l~~ta~~a~a~sAnAg 87 (168)
-.||.+|.+++.++... +-..+|+|-
T Consensus 50 ~srr~~l~~~~ga~a~~---~~~~pa~aa 75 (260)
T PLN00042 50 VSRRAALALLAGAAAAG---AKVSPANAA 75 (260)
T ss_pred ccHHHHHHHHHHHHHhh---cccCchhhh
Confidence 47888877776653322 445555553
Done!